data_KGX
#
_chem_comp.id KGX
_chem_comp.name
"2-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-[(2-azanylethylcarbamoylamino)methyl]-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynyl]amino]ethanoic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C28 H36 N14 O9"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-05-25
_chem_comp.pdbx_modified_date 2023-01-06
_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 712.674
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code KGX
_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 7ZZB
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
KGX N1 N1 N 0 1 N N N N N N 15.765 5.312 11.075 5.914 3.902 0.045 N1 KGX 1
KGX C7 C1 C 0 1 N N S N N N 18.611 7.752 15.674 3.049 -0.521 -3.099 C7 KGX 2
KGX C8 C2 C 0 1 Y N N N N N 18.688 11.218 12.856 2.282 -2.453 0.552 C8 KGX 3
KGX N2 N2 N 0 1 N N N N N N 16.459 6.821 12.633 4.953 2.101 -1.087 N2 KGX 4
KGX C9 C3 C 0 1 N N N N N N 17.313 10.884 12.946 1.616 -1.186 0.508 C9 KGX 5
KGX O1 O1 O 0 1 N N N N N N 18.977 8.166 13.365 4.078 -0.696 -0.972 O1 KGX 6
KGX C1 C4 C 0 1 N N N N N N 15.170 4.058 10.635 5.882 5.310 0.449 C1 KGX 7
KGX O5 O2 O 0 1 N N N N N N 15.565 11.513 8.322 -2.989 4.298 -0.942 O5 KGX 8
KGX C5 C5 C 0 1 N N R N N N 19.578 9.182 14.147 3.855 -2.063 -1.394 C5 KGX 9
KGX C6 C6 C 0 1 N N R N N N 18.751 9.245 15.427 2.849 -1.956 -2.562 C6 KGX 10
KGX N3 N3 N 0 1 Y N N N N N 19.687 10.410 13.381 3.285 -2.849 -0.298 N3 KGX 11
KGX C4 C7 C 0 1 N N R N N N 18.306 7.242 14.268 4.151 0.072 -2.193 C4 KGX 12
KGX O4 O3 O 0 1 N N N N N N 15.922 8.364 9.937 -3.251 1.015 0.358 O4 KGX 13
KGX C3 C8 C 0 1 N N N N N N 16.820 7.252 13.966 3.873 1.550 -1.909 C3 KGX 14
KGX O3 O4 O 0 1 N N N N N N 19.416 9.915 16.487 3.154 -2.916 -3.575 O3 KGX 15
KGX C2 C9 C 0 1 N N N N N N 16.100 5.550 12.367 4.921 3.395 -0.711 C2 KGX 16
KGX N4 N4 N 0 1 N N N N N N 14.270 9.388 12.036 -0.625 1.214 1.492 N4 KGX 17
KGX N N5 N 0 1 N N N N N N 13.212 3.262 9.368 7.085 7.038 1.699 N KGX 18
KGX C C10 C 0 1 N N N N N N 13.704 4.262 10.331 7.117 5.626 1.294 C KGX 19
KGX O O5 O 0 1 N N N N N N 16.114 4.670 13.228 3.995 4.105 -1.055 O KGX 20
KGX C10 C11 C 0 1 N N N N N N 16.129 10.753 12.922 1.071 -0.147 0.473 C10 KGX 21
KGX C11 C12 C 0 1 N N N N N N 14.693 10.428 12.980 0.386 1.156 0.428 C11 KGX 22
KGX C12 C13 C 0 1 N N N N N N 14.141 9.835 10.639 -1.487 2.394 1.334 C12 KGX 23
KGX C13 C14 C 0 1 N N R N N N 15.487 9.738 9.953 -2.428 2.182 0.147 C13 KGX 24
KGX C14 C15 C 0 1 N N R N N N 16.934 8.286 8.939 -4.387 1.186 -0.517 C14 KGX 25
KGX C15 C16 C 0 1 N N R N N N 16.704 9.418 7.930 -4.746 2.684 -0.409 C15 KGX 26
KGX C16 C17 C 0 1 N N S N N N 15.447 10.112 8.476 -3.428 3.355 0.038 C16 KGX 27
KGX C17 C18 C 0 1 Y N N N N N 15.963 6.308 7.669 -5.709 -0.108 1.199 C17 KGX 28
KGX C18 C19 C 0 1 Y N N N N N 17.651 5.018 7.614 -7.366 -0.851 0.014 C18 KGX 29
KGX C19 C20 C 0 1 Y N N N N N 18.035 6.126 8.350 -6.547 -0.094 -0.840 C19 KGX 30
KGX C20 C21 C 0 1 Y N N N N N 20.072 5.346 8.639 -7.983 -0.535 -2.579 C20 KGX 31
KGX C21 C22 C 0 1 Y N N N N N 18.626 4.021 7.414 -8.522 -1.440 -0.525 C21 KGX 32
KGX C22 C23 C 0 1 N N N N N N 13.098 8.655 12.515 0.005 1.196 2.819 C22 KGX 33
KGX C23 C24 C 0 1 N N N N N N 11.864 9.461 12.855 -1.025 0.840 3.859 C23 KGX 34
KGX C24 C25 C 0 1 Y N N N N N 20.534 12.163 12.362 2.839 -4.463 1.164 C24 KGX 35
KGX C25 C26 C 0 1 Y N N N N N 20.874 11.021 13.066 3.654 -4.119 0.070 C25 KGX 36
KGX C26 C27 C 0 1 Y N N N N N 23.026 11.433 12.866 4.667 -6.178 0.200 C26 KGX 37
KGX C27 C28 C 0 1 Y N N N N N 21.593 12.955 11.884 3.008 -5.735 1.743 C27 KGX 38
KGX N10 N6 N 0 1 Y N N N N N 19.157 12.290 12.248 2.031 -3.410 1.414 N10 KGX 39
KGX N11 N7 N 0 1 Y N N N N N 22.109 10.600 13.358 4.545 -4.999 -0.373 N11 KGX 40
KGX N12 N8 N 0 1 Y N N N N N 22.848 12.559 12.175 3.926 -6.547 1.229 N12 KGX 41
KGX N13 N9 N 0 1 N N N N N N 21.427 14.039 11.116 2.237 -6.131 2.821 N13 KGX 42
KGX N5 N10 N 0 1 Y N N N N N 16.947 6.960 8.370 -5.507 0.357 -0.066 N5 KGX 43
KGX N6 N11 N 0 1 Y N N N N N 16.332 5.142 7.192 -6.800 -0.816 1.244 N6 KGX 44
KGX N7 N12 N 0 1 Y N N N N N 19.239 6.347 8.901 -6.891 0.036 -2.118 N7 KGX 45
KGX N8 N13 N 0 1 Y N N N N N 19.852 4.234 7.936 -8.784 -1.255 -1.815 N8 KGX 46
KGX N9 N14 N 0 1 N N N N N N 18.401 2.869 6.761 -9.367 -2.197 0.267 N9 KGX 47
KGX O2 O6 O 0 1 N N N N N N 19.786 7.184 16.249 3.483 -0.551 -4.460 O2 KGX 48
KGX O6 O7 O 0 1 N N N N N N 17.850 10.268 7.961 -5.161 3.192 -1.679 O6 KGX 49
KGX O7 O8 O 0 1 N N N N N N 10.923 8.964 13.448 -0.682 0.797 5.156 O7 KGX 50
KGX O8 O9 O 0 1 N N N N N N 11.878 10.719 12.484 -2.160 0.592 3.526 O8 KGX 51
KGX H1 H1 H 0 1 N N N N N N 15.933 6.027 10.396 6.653 3.336 0.319 H1 KGX 52
KGX H2 H2 H 0 1 N N N N N N 17.739 7.572 16.320 2.128 0.054 -3.006 H2 KGX 53
KGX H3 H3 H 0 1 N N N N N N 16.476 7.486 11.887 5.691 1.535 -0.813 H3 KGX 54
KGX H4 H4 H 0 1 N N N N N N 15.276 3.305 11.430 5.878 5.942 -0.439 H4 KGX 55
KGX H5 H5 H 0 1 N N N N N N 15.685 3.708 9.728 4.983 5.500 1.034 H5 KGX 56
KGX H6 H6 H 0 1 N N N N N N 14.785 11.936 8.661 -3.609 5.024 -1.095 H6 KGX 57
KGX H7 H7 H 0 1 N N N N N N 20.592 8.859 14.427 4.788 -2.511 -1.738 H7 KGX 58
KGX H8 H8 H 0 1 N N N N N N 17.766 9.689 15.220 1.830 -2.090 -2.201 H8 KGX 59
KGX H9 H9 H 0 1 N N N N N N 18.704 6.224 14.149 5.129 -0.048 -2.659 H9 KGX 60
KGX H10 H10 H 0 1 N N N N N N 16.452 8.280 14.103 2.926 1.646 -1.378 H10 KGX 61
KGX H11 H11 H 0 1 N N N N N N 16.322 6.585 14.686 3.818 2.096 -2.851 H11 KGX 62
KGX H12 H12 H 0 1 N N N N N N 18.858 9.925 17.256 2.553 -2.893 -4.332 H12 KGX 63
KGX H14 H14 H 0 1 N N N N N N 12.242 3.422 9.187 6.230 7.255 2.188 H14 KGX 64
KGX H15 H15 H 0 1 N N N N N N 13.727 3.339 8.515 7.891 7.272 2.259 H15 KGX 65
KGX H17 H17 H 0 1 N N N N N N 13.563 5.267 9.907 7.121 4.994 2.182 H17 KGX 66
KGX H18 H18 H 0 1 N N N N N N 13.129 4.173 11.265 8.017 5.437 0.709 H18 KGX 67
KGX H19 H19 H 0 1 N N N N N N 14.124 11.344 12.762 -0.098 1.278 -0.541 H19 KGX 68
KGX H20 H20 H 0 1 N N N N N N 14.459 10.085 13.998 1.114 1.954 0.574 H20 KGX 69
KGX H21 H21 H 0 1 N N N N N N 13.793 10.878 10.618 -2.074 2.538 2.241 H21 KGX 70
KGX H22 H22 H 0 1 N N N N N N 13.415 9.196 10.115 -0.869 3.274 1.157 H22 KGX 71
KGX H23 H23 H 0 1 N N N N N N 16.218 10.373 10.475 -1.857 2.082 -0.776 H23 KGX 72
KGX H24 H24 H 0 1 N N N N N N 17.909 8.467 9.414 -4.117 0.933 -1.543 H24 KGX 73
KGX H25 H25 H 0 1 N N N N N N 16.515 9.010 6.926 -5.525 2.840 0.337 H25 KGX 74
KGX H26 H26 H 0 1 N N N N N N 14.543 9.710 7.996 -3.555 3.842 1.004 H26 KGX 75
KGX H27 H27 H 0 1 N N N N N N 14.974 6.718 7.523 -5.057 0.080 2.039 H27 KGX 76
KGX H28 H28 H 0 1 N N N N N N 21.065 5.446 9.052 -8.234 -0.409 -3.622 H28 KGX 77
KGX H29 H29 H 0 1 N N N N N N 12.817 7.935 11.732 0.805 0.456 2.831 H29 KGX 78
KGX H30 H30 H 0 1 N N N N N N 13.397 8.111 13.423 0.418 2.181 3.038 H30 KGX 79
KGX H31 H31 H 0 1 N N N N N N 24.054 11.158 13.053 5.401 -6.870 -0.186 H31 KGX 80
KGX H32 H32 H 0 1 N N N N N N 22.321 14.409 10.862 2.362 -7.010 3.210 H32 KGX 81
KGX H33 H33 H 0 1 N N N N N N 20.924 13.788 10.289 1.570 -5.529 3.187 H33 KGX 82
KGX H34 H34 H 0 1 N N N N N N 19.233 2.315 6.765 -9.165 -2.325 1.207 H34 KGX 83
KGX H35 H35 H 0 1 N N N N N N 17.664 2.367 7.214 -10.162 -2.598 -0.117 H35 KGX 84
KGX H36 H36 H 0 1 N N N N N N 19.918 7.542 17.119 2.841 -0.942 -5.069 H36 KGX 85
KGX H37 H37 H 0 1 N N N N N N 18.601 9.800 7.616 -5.342 4.142 -1.682 H37 KGX 86
KGX H38 H38 H 0 1 N N N N N N 10.249 9.620 13.580 -1.377 0.563 5.787 H38 KGX 87
#
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
KGX N9 C21 SING N N 1
KGX N6 C18 SING Y N 2
KGX N6 C17 DOUB Y N 3
KGX C21 C18 DOUB Y N 4
KGX C21 N8 SING Y N 5
KGX C18 C19 SING Y N 6
KGX C17 N5 SING Y N 7
KGX C15 O6 SING N N 8
KGX C15 C16 SING N N 9
KGX C15 C14 SING N N 10
KGX N8 C20 DOUB Y N 11
KGX O5 C16 SING N N 12
KGX C19 N5 SING Y N 13
KGX C19 N7 DOUB Y N 14
KGX N5 C14 SING N N 15
KGX C16 C13 SING N N 16
KGX C20 N7 SING Y N 17
KGX C14 O4 SING N N 18
KGX N C SING N N 19
KGX O4 C13 SING N N 20
KGX C13 C12 SING N N 21
KGX C C1 SING N N 22
KGX C1 N1 SING N N 23
KGX C12 N4 SING N N 24
KGX N1 C2 SING N N 25
KGX N13 C27 SING N N 26
KGX C27 N12 DOUB Y N 27
KGX C27 C24 SING Y N 28
KGX N4 C22 SING N N 29
KGX N4 C11 SING N N 30
KGX N12 C26 SING Y N 31
KGX N10 C24 SING Y N 32
KGX N10 C8 DOUB Y N 33
KGX C24 C25 DOUB Y N 34
KGX C2 N2 SING N N 35
KGX C2 O DOUB N N 36
KGX O8 C23 DOUB N N 37
KGX C22 C23 SING N N 38
KGX N2 C3 SING N N 39
KGX C23 O7 SING N N 40
KGX C8 C9 SING N N 41
KGX C8 N3 SING Y N 42
KGX C26 N11 DOUB Y N 43
KGX C10 C9 TRIP N N 44
KGX C10 C11 SING N N 45
KGX C25 N11 SING Y N 46
KGX C25 N3 SING Y N 47
KGX O1 C5 SING N N 48
KGX O1 C4 SING N N 49
KGX N3 C5 SING N N 50
KGX C3 C4 SING N N 51
KGX C5 C6 SING N N 52
KGX C4 C7 SING N N 53
KGX C6 C7 SING N N 54
KGX C6 O3 SING N N 55
KGX C7 O2 SING N N 56
KGX N1 H1 SING N N 57
KGX C7 H2 SING N N 58
KGX N2 H3 SING N N 59
KGX C1 H4 SING N N 60
KGX C1 H5 SING N N 61
KGX O5 H6 SING N N 62
KGX C5 H7 SING N N 63
KGX C6 H8 SING N N 64
KGX C4 H9 SING N N 65
KGX C3 H10 SING N N 66
KGX C3 H11 SING N N 67
KGX O3 H12 SING N N 68
KGX N H14 SING N N 69
KGX N H15 SING N N 70
KGX C H17 SING N N 71
KGX C H18 SING N N 72
KGX C11 H19 SING N N 73
KGX C11 H20 SING N N 74
KGX C12 H21 SING N N 75
KGX C12 H22 SING N N 76
KGX C13 H23 SING N N 77
KGX C14 H24 SING N N 78
KGX C15 H25 SING N N 79
KGX C16 H26 SING N N 80
KGX C17 H27 SING N N 81
KGX C20 H28 SING N N 82
KGX C22 H29 SING N N 83
KGX C22 H30 SING N N 84
KGX C26 H31 SING N N 85
KGX N13 H32 SING N N 86
KGX N13 H33 SING N N 87
KGX N9 H34 SING N N 88
KGX N9 H35 SING N N 89
KGX O2 H36 SING N N 90
KGX O6 H37 SING N N 91
KGX O7 H38 SING N N 92
#
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
KGX InChI InChI 1.06 InChI=1S/C28H36N14O9/c29-3-4-32-28(49)33-6-12-18(45)21(48)27(50-12)42-14(39-17-23(31)35-10-37-25(17)42)2-1-5-40(8-15(43)44)7-13-19(46)20(47)26(51-13)41-11-38-16-22(30)34-9-36-24(16)41/h9-13,18-21,26-27,45-48H,3-8,29H2,(H,43,44)(H2,30,34,36)(H2,31,35,37)(H2,32,33,49)/t12-,13-,18-,19-,20-,21-,26-,27-/m1/s1
KGX InChIKey InChI 1.06 NHZDFSAEZKJJHU-GMIOVBLFSA-N
KGX SMILES_CANONICAL CACTVS 3.385 "NCCNC(=O)NC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2c(nc3c(N)ncnc23)C#CCN(C[C@H]4O[C@H]([C@H](O)[C@@H]4O)n5cnc6c(N)ncnc56)CC(O)=O"
KGX SMILES CACTVS 3.385 "NCCNC(=O)NC[CH]1O[CH]([CH](O)[CH]1O)n2c(nc3c(N)ncnc23)C#CCN(C[CH]4O[CH]([CH](O)[CH]4O)n5cnc6c(N)ncnc56)CC(O)=O"
KGX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CN(CC#Cc4nc5c(ncnc5n4[C@H]6[C@@H]([C@@H]([C@H](O6)CNC(=O)NCCN)O)O)N)CC(=O)O)O)O)N"
KGX SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CN(CC#Cc4nc5c(ncnc5n4C6C(C(C(O6)CNC(=O)NCCN)O)O)N)CC(=O)O)O)O)N"
#
_pdbx_chem_comp_identifier.comp_id KGX
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier
"2-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-[(2-azanylethylcarbamoylamino)methyl]-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynyl]amino]ethanoic 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
KGX 'Create component' 2022-05-25 PDBE
KGX 'Modify descriptor' 2022-08-22 RCSB
KGX 'Initial release' 2023-01-11 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
KGX N1 N 6.298 8.426 1
KGX C7 C 11.579 4.476 2
KGX C8 C 10.559 -0.118 3
KGX N2 N 8.226 6.684 4
KGX C9 C 12.059 -0.118 5
KGX O1 O 9.270 3.730 6
KGX C1 C 5.837 9.853 7
KGX O5 O 20.554 -1.758 8
KGX C5 C 10.149 2.515 9
KGX C6 C 11.577 2.976 10
KGX N3 N 9.683 1.089 11
KGX C4 C 10.154 4.942 12
KGX O4 O 17.449 -4.086 13
KGX C3 C 9.693 6.370 14
KGX O3 O 12.789 2.092 15
KGX C2 C 7.765 8.112 16
KGX N4 N 15.809 -1.417 17
KGX N N 3.909 11.595 18
KGX C C 4.370 10.168 19
KGX O O 8.771 9.225 20
KGX C10 C 13.559 -0.118 21
KGX C11 C 15.059 -0.118 22
KGX C12 C 17.309 -1.417 23
KGX C13 C 18.059 -2.716 24
KGX C14 C 18.563 -5.090 25
KGX C15 C 19.862 -4.340 26
KGX C16 C 19.551 -2.873 27
KGX C17 C 17.115 -7.326 28
KGX C18 C 18.903 -8.947 29
KGX C19 C 19.516 -7.578 30
KGX C20 C 21.887 -8.639 31
KGX C21 C 19.783 -10.162 32
KGX C22 C 15.059 -2.716 33
KGX C23 C 13.559 -2.716 34
KGX C24 C 8.264 -0.868 35
KGX C25 C 8.264 0.632 36
KGX C26 C 5.666 0.632 37
KGX C27 C 6.965 -1.618 38
KGX N10 N 9.683 -1.325 39
KGX N11 N 6.965 1.382 40
KGX N12 N 5.666 -0.868 41
KGX N13 N 6.965 -3.118 42
KGX N5 N 18.407 -6.581 43
KGX N6 N 17.421 -8.785 44
KGX N7 N 21.008 -7.424 45
KGX N8 N 21.275 -10.008 46
KGX N9 N 19.170 -11.532 47
KGX O2 O 12.794 5.356 48
KGX O6 O 21.233 -4.950 49
KGX O7 O 12.809 -1.417 50
KGX O8 O 12.809 -4.015 51
#
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
KGX N9 C21 SINGLE NONE 1
KGX N6 C18 SINGLE NONE 2
KGX N6 C17 DOUBLE NONE 3
KGX C21 C18 DOUBLE NONE 4
KGX C21 N8 SINGLE NONE 5
KGX C18 C19 SINGLE NONE 6
KGX C17 N5 SINGLE NONE 7
KGX C15 O6 SINGLE BEGINWEDGE 8
KGX C15 C16 SINGLE NONE 9
KGX C15 C14 SINGLE NONE 10
KGX N8 C20 DOUBLE NONE 11
KGX C16 O5 SINGLE BEGINWEDGE 12
KGX C19 N5 SINGLE NONE 13
KGX C19 N7 DOUBLE NONE 14
KGX C14 N5 SINGLE BEGINDASH 15
KGX C16 C13 SINGLE NONE 16
KGX C20 N7 SINGLE NONE 17
KGX C14 O4 SINGLE NONE 18
KGX N C SINGLE NONE 19
KGX O4 C13 SINGLE NONE 20
KGX C13 C12 SINGLE BEGINDASH 21
KGX C C1 SINGLE NONE 22
KGX C1 N1 SINGLE NONE 23
KGX C12 N4 SINGLE NONE 24
KGX N1 C2 SINGLE NONE 25
KGX N13 C27 SINGLE NONE 26
KGX C27 N12 SINGLE NONE 27
KGX C27 C24 DOUBLE NONE 28
KGX N4 C22 SINGLE NONE 29
KGX N4 C11 SINGLE NONE 30
KGX N12 C26 DOUBLE NONE 31
KGX N10 C24 SINGLE NONE 32
KGX N10 C8 DOUBLE NONE 33
KGX C24 C25 SINGLE NONE 34
KGX C2 N2 SINGLE NONE 35
KGX C2 O DOUBLE NONE 36
KGX O8 C23 DOUBLE NONE 37
KGX C22 C23 SINGLE NONE 38
KGX N2 C3 SINGLE NONE 39
KGX C23 O7 SINGLE NONE 40
KGX C8 C9 SINGLE NONE 41
KGX C8 N3 SINGLE NONE 42
KGX C26 N11 SINGLE NONE 43
KGX C10 C9 TRIPLE NONE 44
KGX C10 C11 SINGLE NONE 45
KGX C25 N11 DOUBLE NONE 46
KGX C25 N3 SINGLE NONE 47
KGX O1 C5 SINGLE NONE 48
KGX O1 C4 SINGLE NONE 49
KGX C5 N3 SINGLE BEGINDASH 50
KGX C4 C3 SINGLE BEGINDASH 51
KGX C5 C6 SINGLE NONE 52
KGX C4 C7 SINGLE NONE 53
KGX C6 C7 SINGLE NONE 54
KGX C6 O3 SINGLE BEGINWEDGE 55
KGX C7 O2 SINGLE BEGINWEDGE 56
#
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
KGX MurckoScaffold S1 scaffold 'C(#Cc1nc2cncnc2n1[C@H]1CCCO1)CNC[C@@H]1CC[C@H](n2cnc3cncnc32)O1' InChI=1S/C22H23N9O2/c1(3-18-29-17-11-25-13-27-22(17)31(18)20-4-2-8-32-20)7-23-9-15-5-6-19(33-15)30-14-28-16-10-24-12-26-21(16)30/h10-15,19-20,23H,2,4-9H2/t15-,19+,20+/m0/s1 AQDJRWGHEKTEKO-CWFSZBLJSA-N
KGX adenine F1 fragment 'Nc1ncnc2nc[nH]c12' InChI=1S/C5H5N5/c6-4-3-5(9-1-7-3)10-2-8-4/h1-2H,(H3,6,7,8,9,10) GFFGJBXGBJISGV-UHFFFAOYSA-N
KGX imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
KGX peptide F3 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
KGX purine F4 fragment 'c1ncc2[nH]cnc2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
KGX pyrimidine F5 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
KGX Z1362754425 F6 fragment Cc1nccn1CC(C)O InChI=1S/C7H12N2O/c1-6(10)5-9-4-3-8-7(9)2/h3-4,6,10H,5H2,1-2H3 VUFBCWUJICCKDU-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
KGX C7 S1 1
KGX C8 S1 1
KGX C9 S1 1
KGX O1 S1 1
KGX C5 S1 1
KGX C6 S1 1
KGX N3 S1 1
KGX C4 S1 1
KGX O4 S1 1
KGX N4 S1 1
KGX C10 S1 1
KGX C11 S1 1
KGX C12 S1 1
KGX C13 S1 1
KGX C14 S1 1
KGX C15 S1 1
KGX C16 S1 1
KGX C17 S1 1
KGX C18 S1 1
KGX C19 S1 1
KGX C20 S1 1
KGX C21 S1 1
KGX C24 S1 1
KGX C25 S1 1
KGX C26 S1 1
KGX C27 S1 1
KGX N10 S1 1
KGX N11 S1 1
KGX N12 S1 1
KGX N5 S1 1
KGX N6 S1 1
KGX N7 S1 1
KGX N8 S1 1
KGX N12 F1 1
KGX C27 F1 1
KGX C24 F1 1
KGX C25 F1 1
KGX N11 F1 1
KGX C26 F1 1
KGX N3 F1 1
KGX C8 F1 1
KGX N10 F1 1
KGX N13 F1 1
KGX N8 F1 2
KGX C21 F1 2
KGX C18 F1 2
KGX C19 F1 2
KGX N7 F1 2
KGX C20 F1 2
KGX N5 F1 2
KGX C17 F1 2
KGX N6 F1 2
KGX N9 F1 2
KGX C18 F2 1
KGX C19 F2 1
KGX N5 F2 1
KGX C17 F2 1
KGX N6 F2 1
KGX C24 F2 2
KGX C25 F2 2
KGX N3 F2 2
KGX C8 F2 2
KGX N10 F2 2
KGX O8 F3 1
KGX C23 F3 1
KGX C22 F3 1
KGX N4 F3 1
KGX N10 F4 1
KGX C8 F4 1
KGX N3 F4 1
KGX C25 F4 1
KGX C24 F4 1
KGX C27 F4 1
KGX N12 F4 1
KGX C26 F4 1
KGX N11 F4 1
KGX N6 F4 2
KGX C17 F4 2
KGX N5 F4 2
KGX C19 F4 2
KGX C18 F4 2
KGX C21 F4 2
KGX N8 F4 2
KGX C20 F4 2
KGX N7 F4 2
KGX C18 F5 1
KGX C21 F5 1
KGX N8 F5 1
KGX C20 F5 1
KGX N7 F5 1
KGX C19 F5 1
KGX C24 F5 2
KGX C27 F5 2
KGX N12 F5 2
KGX C26 F5 2
KGX N11 F5 2
KGX C25 F5 2
KGX C7 F6 1
KGX C6 F6 1
KGX O3 F6 1
KGX C5 F6 1
KGX N3 F6 1
KGX C25 F6 1
KGX C24 F6 1
KGX N10 F6 1
KGX C8 F6 1
KGX C9 F6 1
#
_pdbe_chem_comp_rdkit_properties.comp_id KGX
_pdbe_chem_comp_rdkit_properties.exactmw 712.279
_pdbe_chem_comp_rdkit_properties.amw 712.685
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 23
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 13
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 18
_pdbe_chem_comp_rdkit_properties.NumHBD 10
_pdbe_chem_comp_rdkit_properties.NumHBA 21
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 51
_pdbe_chem_comp_rdkit_properties.NumAtoms 87
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 23
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 2
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.500
_pdbe_chem_comp_rdkit_properties.NumRings 6
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 4
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 6
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 4
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 8
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 338.442
_pdbe_chem_comp_rdkit_properties.tpsa 346.310
_pdbe_chem_comp_rdkit_properties.CrippenClogP -6.608
_pdbe_chem_comp_rdkit_properties.CrippenMR 166.402
_pdbe_chem_comp_rdkit_properties.chi0v 23.935
_pdbe_chem_comp_rdkit_properties.chi1v 12.756
_pdbe_chem_comp_rdkit_properties.chi2v 5.816
_pdbe_chem_comp_rdkit_properties.chi3v 5.816
_pdbe_chem_comp_rdkit_properties.chi4v 3.818
_pdbe_chem_comp_rdkit_properties.chi0n 59.935
_pdbe_chem_comp_rdkit_properties.chi1n 29.875
_pdbe_chem_comp_rdkit_properties.chi2n 5.816
_pdbe_chem_comp_rdkit_properties.chi3n 5.816
_pdbe_chem_comp_rdkit_properties.chi4n 3.818
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -5.320
_pdbe_chem_comp_rdkit_properties.kappa1 12.137
_pdbe_chem_comp_rdkit_properties.kappa2 14.884
_pdbe_chem_comp_rdkit_properties.kappa3 7.151
_pdbe_chem_comp_rdkit_properties.Phi 3.542
#
_pdbe_chem_comp_external_mappings.comp_id KGX
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PDBe
_pdbe_chem_comp_external_mappings.resource_id KGX
#
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
KGX N1 -4.327 2.526 2.914 ETKDGv3 1
KGX C7 -2.478 -1.746 1.511 ETKDGv3 2
KGX C8 -1.298 -3.238 -2.438 ETKDGv3 3
KGX N2 -3.058 1.210 1.239 ETKDGv3 4
KGX C9 -0.553 -2.034 -2.192 ETKDGv3 5
KGX O1 -3.367 -1.905 -0.720 ETKDGv3 6
KGX C1 -5.563 3.065 3.478 ETKDGv3 7
KGX O5 0.386 1.720 2.636 ETKDGv3 8
KGX C5 -2.870 -3.164 -0.341 ETKDGv3 9
KGX C6 -1.898 -2.960 0.807 ETKDGv3 10
KGX N3 -2.222 -3.814 -1.483 ETKDGv3 11
KGX C4 -3.394 -1.108 0.445 ETKDGv3 12
KGX O4 3.530 0.560 1.438 ETKDGv3 13
KGX C3 -2.962 0.320 0.083 ETKDGv3 14
KGX O3 -1.851 -4.096 1.632 ETKDGv3 15
KGX C2 -4.309 1.689 1.749 ETKDGv3 16
KGX N4 2.003 -0.093 -0.755 ETKDGv3 17
KGX N -7.302 4.771 3.208 ETKDGv3 18
KGX C -6.080 4.226 2.627 ETKDGv3 19
KGX O -5.389 1.376 1.177 ETKDGv3 20
KGX C10 0.089 -1.037 -1.979 ETKDGv3 21
KGX C11 0.896 0.166 -1.706 ETKDGv3 22
KGX C12 1.509 -0.485 0.590 ETKDGv3 23
KGX C13 2.153 0.383 1.684 ETKDGv3 24
KGX C14 3.881 1.853 1.884 ETKDGv3 25
KGX C15 2.625 2.599 2.352 ETKDGv3 26
KGX C16 1.506 1.756 1.790 ETKDGv3 27
KGX C17 3.966 3.021 -0.445 ETKDGv3 28
KGX C18 6.097 2.975 -0.845 ETKDGv3 29
KGX C19 5.927 2.534 0.490 ETKDGv3 30
KGX C20 8.207 1.984 0.595 ETKDGv3 31
KGX C21 7.290 2.896 -1.433 ETKDGv3 32
KGX C22 2.994 -1.067 -1.271 ETKDGv3 33
KGX C23 3.779 -0.496 -2.411 ETKDGv3 34
KGX C24 -2.044 -5.011 -3.436 ETKDGv3 35
KGX C25 -2.695 -4.951 -2.179 ETKDGv3 36
KGX C26 -3.975 -6.832 -2.755 ETKDGv3 37
KGX C27 -2.367 -5.956 -4.317 ETKDGv3 38
KGX N10 -1.166 -3.902 -3.557 ETKDGv3 39
KGX N11 -3.629 -5.779 -1.825 ETKDGv3 40
KGX N12 -3.380 -6.911 -3.924 ETKDGv3 41
KGX N13 -1.761 -6.025 -5.607 ETKDGv3 42
KGX N5 4.549 2.578 0.802 ETKDGv3 43
KGX N6 4.823 3.269 -1.401 ETKDGv3 44
KGX N7 6.890 2.023 1.194 ETKDGv3 45
KGX N8 8.389 2.393 -0.640 ETKDGv3 46
KGX N9 7.482 3.251 -2.803 ETKDGv3 47
KGX O2 -3.204 -2.090 2.669 ETKDGv3 48
KGX O6 2.568 2.619 3.757 ETKDGv3 49
KGX O7 4.896 0.291 -2.158 ETKDGv3 50
KGX O8 3.425 -0.723 -3.600 ETKDGv3 51
KGX H1 -3.429 2.711 3.414 ETKDGv3 52
KGX H2 -1.650 -1.069 1.813 ETKDGv3 53
KGX H3 -2.174 1.552 1.676 ETKDGv3 54
KGX H4 -6.330 2.263 3.546 ETKDGv3 55
KGX H5 -5.360 3.432 4.508 ETKDGv3 56
KGX H6 -0.045 2.611 2.566 ETKDGv3 57
KGX H7 -3.726 -3.789 0.005 ETKDGv3 58
KGX H8 -0.881 -2.721 0.421 ETKDGv3 59
KGX H9 -4.445 -1.074 0.808 ETKDGv3 60
KGX H10 -1.914 0.304 -0.281 ETKDGv3 61
KGX H11 -3.595 0.712 -0.742 ETKDGv3 62
KGX H12 -1.100 -3.951 2.264 ETKDGv3 63
KGX H14 -7.664 5.505 2.557 ETKDGv3 64
KGX H15 -7.051 5.262 4.097 ETKDGv3 65
KGX H17 -6.297 3.866 1.598 ETKDGv3 66
KGX H18 -5.303 5.021 2.565 ETKDGv3 67
KGX H19 1.295 0.559 -2.664 ETKDGv3 68
KGX H20 0.234 0.960 -1.300 ETKDGv3 69
KGX H21 1.722 -1.557 0.807 ETKDGv3 70
KGX H22 0.403 -0.384 0.675 ETKDGv3 71
KGX H23 2.041 -0.147 2.658 ETKDGv3 72
KGX H24 4.593 1.751 2.733 ETKDGv3 73
KGX H25 2.564 3.639 1.953 ETKDGv3 74
KGX H26 1.218 2.131 0.781 ETKDGv3 75
KGX H27 2.901 3.127 -0.594 ETKDGv3 76
KGX H28 9.044 1.604 1.164 ETKDGv3 77
KGX H29 3.724 -1.326 -0.473 ETKDGv3 78
KGX H30 2.506 -2.017 -1.581 ETKDGv3 79
KGX H31 -4.733 -7.556 -2.488 ETKDGv3 80
KGX H32 -1.032 -5.337 -5.900 ETKDGv3 81
KGX H33 -2.044 -6.774 -6.277 ETKDGv3 82
KGX H34 8.427 3.161 -3.237 ETKDGv3 83
KGX H35 6.690 3.601 -3.387 ETKDGv3 84
KGX H36 -3.930 -2.714 2.404 ETKDGv3 85
KGX H37 3.187 3.336 4.054 ETKDGv3 86
KGX H38 5.437 0.684 -2.918 ETKDGv3 87
#