data_8K1
#
_chem_comp.id 8K1
_chem_comp.name
"5'-O-[(R)-hydroxy{[(7beta,8alpha,9beta,10alpha,11beta,13alpha)-7-hydroxy-19-oxo-11,16-epoxykauran-19-yl]oxy}phosphoryl]adenosine"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C30 H42 N5 O10 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2017-02-10
_chem_comp.pdbx_modified_date 2017-02-17
_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 663.656
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 8K1
_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 5UPS
_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.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
8K1 C11 C1 C 0 1 N N R N N N 26.138 87.988 23.041 -2.813 0.040 -1.674 C11 8K1 1
8K1 C12 C2 C 0 1 N N N N N N 25.376 86.677 23.314 -2.615 -0.825 -2.944 C12 8K1 2
8K1 C13 C3 C 0 1 N N N N N N 27.536 87.816 23.654 -2.319 1.441 -2.030 C13 8K1 3
8K1 C14 C4 C 0 1 N N N N N N 28.441 89.002 23.381 -2.766 2.483 -1.013 C14 8K1 4
8K1 C15 C5 C 0 1 N N N N N N 28.543 89.230 21.873 -4.287 2.471 -0.884 C15 8K1 5
8K1 C16 C6 C 0 1 N N R N N N 27.200 89.408 21.151 -4.753 1.106 -0.354 C16 8K1 6
8K1 C18 C7 C 0 1 N N S N N N 26.278 88.254 21.537 -4.281 0.019 -1.317 C18 8K1 7
8K1 C19 C8 C 0 1 N N N N N N 24.968 88.256 20.743 -4.750 -1.348 -0.820 C19 8K1 8
8K1 C20 C9 C 0 1 N N R N N N 25.270 88.003 19.266 -6.280 -1.396 -0.923 C20 8K1 9
8K1 C21 C10 C 0 1 N N R N N N 26.204 89.061 18.687 -6.915 -0.269 -0.152 C21 8K1 10
8K1 C22 C11 C 0 1 N N N N N N 25.548 90.380 18.275 -7.104 -0.606 1.339 C22 8K1 11
8K1 C23 C12 C 0 1 N N S N N N 27.425 89.314 19.619 -6.274 1.092 -0.351 C23 8K1 12
8K1 C25 C13 C 0 1 N N N N N N 27.587 91.669 18.562 -7.092 1.751 1.974 C25 8K1 13
8K1 C28 C14 C 0 1 N N N N N N 27.866 90.006 15.474 -10.380 0.940 0.743 C28 8K1 14
8K1 O8 O1 O 0 1 N N N N N N 25.351 89.567 27.551 0.150 -0.336 1.719 O8 8K1 15
8K1 P P1 P 0 1 N N N N N N 24.698 89.879 26.250 0.250 -1.276 0.416 P 8K1 16
8K1 O7 O2 O 0 1 N N N N N N 24.516 91.403 25.969 -0.279 -2.621 0.736 O7 8K1 17
8K1 O2 O3 O 0 1 N N N N N N 23.306 89.070 26.172 1.790 -1.400 -0.040 O2 8K1 18
8K1 C9 C15 C 0 1 N N N N N N 23.339 87.704 26.579 2.790 -2.031 0.762 C9 8K1 19
8K1 C8 C16 C 0 1 N N R N N N 21.965 87.114 26.359 4.136 -1.975 0.035 C8 8K1 20
8K1 C7 C17 C 0 1 N N S N N N 21.933 85.650 26.690 5.206 -2.760 0.825 C7 8K1 21
8K1 O1 O4 O 0 1 N N N N N N 21.707 85.402 28.074 5.375 -4.068 0.275 O1 8K1 22
8K1 C6 C18 C 0 1 N N R N N N 20.836 85.166 25.786 6.494 -1.926 0.642 C6 8K1 23
8K1 O O5 O 0 1 N N N N N N 19.548 85.397 26.352 7.497 -2.694 -0.026 O 8K1 24
8K1 O9 O6 O 0 1 N N N N N N 21.676 87.214 24.969 4.629 -0.618 -0.005 O9 8K1 25
8K1 C5 C19 C 0 1 N N R N N N 21.000 86.036 24.550 6.049 -0.736 -0.236 C5 8K1 26
8K1 N4 N1 N 0 1 Y N N N N N 21.747 85.363 23.480 6.737 0.489 0.179 N4 8K1 27
8K1 C2 C20 C 0 1 Y N N N N N 21.543 85.628 22.187 7.951 0.935 -0.280 C2 8K1 28
8K1 N2 N2 N 0 1 Y N N N N N 20.716 86.458 21.506 8.846 0.485 -1.153 N2 8K1 29
8K1 C1 C21 C 0 1 Y N N N N N 20.737 86.490 20.148 9.952 1.160 -1.388 C1 8K1 30
8K1 N1 N3 N 0 1 Y N N N N N 21.571 85.717 19.400 10.230 2.299 -0.780 N1 8K1 31
8K1 C4 C22 C 0 1 Y N N N N N 22.704 84.386 23.585 6.285 1.399 1.089 C4 8K1 32
8K1 N3 N4 N 0 1 Y N N N N N 23.143 84.022 22.359 7.148 2.365 1.217 N3 8K1 33
8K1 C3 C23 C 0 1 Y N N N N N 22.444 84.739 21.452 8.200 2.143 0.393 C3 8K1 34
8K1 C C24 C 0 1 Y N N N N N 22.416 84.840 19.978 9.395 2.826 0.109 C 8K1 35
8K1 N N5 N 0 1 N N N N N N 23.233 84.076 19.246 9.694 4.021 0.740 N 8K1 36
8K1 O3 O7 O 0 1 N N N N N N 25.665 89.187 25.170 -0.613 -0.630 -0.780 O3 8K1 37
8K1 C10 C25 C 0 1 N N N N N N 25.305 88.963 23.800 -1.941 -0.553 -0.599 C10 8K1 38
8K1 O6 O8 O 0 1 N N N N N N 24.300 89.476 23.334 -2.436 -0.959 0.425 O6 8K1 39
8K1 O4 O9 O 0 1 N N N N N N 24.045 87.936 18.547 -6.746 -2.651 -0.418 O4 8K1 40
8K1 C29 C26 C 0 1 N N N N N N 26.778 88.630 17.347 -8.407 -0.082 -0.574 C29 8K1 41
8K1 C27 C27 C 0 1 N N S N N N 27.533 89.896 16.954 -8.866 0.926 0.520 C27 8K1 42
8K1 O5 O10 O 0 1 N N N N N N 28.743 89.925 17.722 -8.335 2.210 0.095 O5 8K1 43
8K1 C26 C28 C 0 1 N N S N N N 26.683 91.037 17.531 -8.058 0.539 1.796 C26 8K1 44
8K1 C24 C29 C 0 1 N N S N N N 28.321 90.409 18.995 -6.929 2.179 0.495 C24 8K1 45
8K1 C17 C30 C 0 1 N N N N N N 26.665 90.786 21.598 -4.191 0.907 1.048 C17 8K1 46
8K1 H1 H1 H 0 1 N N N N N N 25.295 86.519 24.400 -1.559 -0.839 -3.213 H1 8K1 47
8K1 H2 H2 H 0 1 N N N N N N 24.369 86.741 22.876 -2.953 -1.843 -2.747 H2 8K1 48
8K1 H3 H3 H 0 1 N N N N N N 25.920 85.835 22.861 -3.194 -0.403 -3.765 H3 8K1 49
8K1 H4 H4 H 0 1 N N N N N N 27.431 87.696 24.742 -1.224 1.429 -2.074 H4 8K1 50
8K1 H5 H5 H 0 1 N N N N N N 27.999 86.914 23.228 -2.695 1.713 -3.021 H5 8K1 51
8K1 H6 H6 H 0 1 N N N N N N 29.442 88.801 23.790 -2.288 2.316 -0.054 H6 8K1 52
8K1 H7 H7 H 0 1 N N N N N N 28.023 89.900 23.860 -2.458 3.477 -1.371 H7 8K1 53
8K1 H8 H8 H 0 1 N N N N N N 29.056 88.363 21.431 -4.603 3.253 -0.196 H8 8K1 54
8K1 H9 H9 H 0 1 N N N N N N 29.143 90.136 21.705 -4.738 2.642 -1.863 H9 8K1 55
8K1 H10 H10 H 0 1 N N N N N N 26.806 87.364 21.165 -4.840 0.200 -2.270 H10 8K1 56
8K1 H11 H11 H 0 1 N N N N N N 24.473 89.232 20.855 -4.338 -2.141 -1.447 H11 8K1 57
8K1 H12 H12 H 0 1 N N N N N N 24.307 87.463 21.124 -4.450 -1.524 0.208 H12 8K1 58
8K1 H13 H13 H 0 1 N N N N N N 25.781 87.032 19.193 -6.566 -1.313 -1.976 H13 8K1 59
8K1 H14 H14 H 0 1 N N N N N N 25.242 90.971 19.151 -7.599 -1.579 1.462 H14 8K1 60
8K1 H15 H15 H 0 1 N N N N N N 24.678 90.214 17.622 -6.172 -0.597 1.894 H15 8K1 61
8K1 H16 H16 H 0 1 N N N N N N 28.024 88.399 19.506 -6.549 1.372 -1.408 H16 8K1 62
8K1 H17 H17 H 0 1 N N N N N N 28.264 92.416 18.122 -7.582 2.546 2.555 H17 8K1 63
8K1 H18 H18 H 0 1 N N N N N N 27.022 92.127 19.387 -6.170 1.466 2.461 H18 8K1 64
8K1 H19 H19 H 0 1 N N N N N N 28.407 90.946 15.288 -10.713 -0.055 1.036 H19 8K1 65
8K1 H20 H20 H 0 1 N N N N N N 28.496 89.155 15.176 -10.625 1.652 1.531 H20 8K1 66
8K1 H21 H21 H 0 1 N N N N N N 26.936 89.996 14.887 -10.880 1.234 -0.180 H21 8K1 67
8K1 H22 H22 H 0 1 N N N N N N 25.554 90.376 28.006 0.481 0.562 1.582 H22 8K1 68
8K1 H23 H23 H 0 1 N N N N N N 24.081 87.155 25.981 2.871 -1.513 1.717 H23 8K1 69
8K1 H24 H24 H 0 1 N N N N N N 23.606 87.639 27.644 2.514 -3.071 0.935 H24 8K1 70
8K1 H25 H25 H 0 1 N N N N N N 21.221 87.656 26.962 4.039 -2.375 -0.974 H25 8K1 71
8K1 H26 H26 H 0 1 N N N N N N 22.883 85.192 26.376 4.935 -2.822 1.879 H26 8K1 72
8K1 H27 H27 H 0 1 N N N N N N 22.439 85.734 28.579 6.036 -4.605 0.733 H27 8K1 73
8K1 H28 H28 H 0 1 N N N N N N 20.985 84.107 25.530 6.862 -1.576 1.607 H28 8K1 74
8K1 H29 H29 H 0 1 N N N N N N 19.440 84.856 27.125 7.770 -3.487 0.454 H29 8K1 75
8K1 H30 H30 H 0 1 N N N N N N 19.999 86.298 24.177 6.247 -0.945 -1.287 H30 8K1 76
8K1 H31 H31 H 0 1 N N N N N N 20.060 87.160 19.638 10.658 0.767 -2.104 H31 8K1 77
8K1 H32 H32 H 0 1 N N N N N N 23.057 83.967 24.516 5.350 1.328 1.624 H32 8K1 78
8K1 H33 H33 H 0 1 N N N N N N 23.096 84.275 18.276 10.522 4.483 0.536 H33 8K1 79
8K1 H34 H34 H 0 1 N N N N N N 24.182 84.269 19.495 9.077 4.395 1.388 H34 8K1 80
8K1 H35 H35 H 0 1 N N N N N N 23.488 87.270 18.932 -6.402 -3.418 -0.895 H35 8K1 81
8K1 H36 H36 H 0 1 N N N N N N 25.985 88.388 16.624 -8.468 0.350 -1.572 H36 8K1 82
8K1 H37 H37 H 0 1 N N N N N N 27.454 87.769 17.452 -8.944 -1.025 -0.507 H37 8K1 83
8K1 H38 H38 H 0 1 N N N N N N 26.343 91.746 16.761 -8.668 0.307 2.667 H38 8K1 84
8K1 H39 H39 H 0 1 N N N N N N 29.165 90.649 19.659 -6.459 3.154 0.380 H39 8K1 85
8K1 H40 H40 H 0 1 N N N N N N 26.527 90.790 22.689 -3.102 0.934 1.010 H40 8K1 86
8K1 H41 H41 H 0 1 N N N N N N 27.386 91.568 21.317 -4.552 1.702 1.701 H41 8K1 87
8K1 H42 H42 H 0 1 N N N N N N 25.701 90.982 21.106 -4.517 -0.058 1.436 H42 8K1 88
#
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
8K1 C28 C27 SING N N 1
8K1 C27 C29 SING N N 2
8K1 C27 C26 SING N N 3
8K1 C27 O5 SING N N 4
8K1 C29 C21 SING N N 5
8K1 C26 C22 SING N N 6
8K1 C26 C25 SING N N 7
8K1 O5 C24 SING N N 8
8K1 C22 C21 SING N N 9
8K1 O4 C20 SING N N 10
8K1 C25 C24 SING N N 11
8K1 C21 C20 SING N N 12
8K1 C21 C23 SING N N 13
8K1 C24 C23 SING N N 14
8K1 N C SING N N 15
8K1 C20 C19 SING N N 16
8K1 N1 C DOUB Y N 17
8K1 N1 C1 SING Y N 18
8K1 C23 C16 SING N N 19
8K1 C C3 SING Y N 20
8K1 C1 N2 DOUB Y N 21
8K1 C19 C18 SING N N 22
8K1 C16 C18 SING N N 23
8K1 C16 C17 SING N N 24
8K1 C16 C15 SING N N 25
8K1 C3 C2 DOUB Y N 26
8K1 C3 N3 SING Y N 27
8K1 N2 C2 SING Y N 28
8K1 C18 C11 SING N N 29
8K1 C15 C14 SING N N 30
8K1 C2 N4 SING Y N 31
8K1 N3 C4 DOUB Y N 32
8K1 C11 C12 SING N N 33
8K1 C11 C13 SING N N 34
8K1 C11 C10 SING N N 35
8K1 O6 C10 DOUB N N 36
8K1 C14 C13 SING N N 37
8K1 N4 C4 SING Y N 38
8K1 N4 C5 SING N N 39
8K1 C10 O3 SING N N 40
8K1 C5 O9 SING N N 41
8K1 C5 C6 SING N N 42
8K1 O9 C8 SING N N 43
8K1 O3 P SING N N 44
8K1 C6 O SING N N 45
8K1 C6 C7 SING N N 46
8K1 O7 P DOUB N N 47
8K1 O2 P SING N N 48
8K1 O2 C9 SING N N 49
8K1 P O8 SING N N 50
8K1 C8 C9 SING N N 51
8K1 C8 C7 SING N N 52
8K1 C7 O1 SING N N 53
8K1 C12 H1 SING N N 54
8K1 C12 H2 SING N N 55
8K1 C12 H3 SING N N 56
8K1 C13 H4 SING N N 57
8K1 C13 H5 SING N N 58
8K1 C14 H6 SING N N 59
8K1 C14 H7 SING N N 60
8K1 C15 H8 SING N N 61
8K1 C15 H9 SING N N 62
8K1 C18 H10 SING N N 63
8K1 C19 H11 SING N N 64
8K1 C19 H12 SING N N 65
8K1 C20 H13 SING N N 66
8K1 C22 H14 SING N N 67
8K1 C22 H15 SING N N 68
8K1 C23 H16 SING N N 69
8K1 C25 H17 SING N N 70
8K1 C25 H18 SING N N 71
8K1 C28 H19 SING N N 72
8K1 C28 H20 SING N N 73
8K1 C28 H21 SING N N 74
8K1 O8 H22 SING N N 75
8K1 C9 H23 SING N N 76
8K1 C9 H24 SING N N 77
8K1 C8 H25 SING N N 78
8K1 C7 H26 SING N N 79
8K1 O1 H27 SING N N 80
8K1 C6 H28 SING N N 81
8K1 O H29 SING N N 82
8K1 C5 H30 SING N N 83
8K1 C1 H31 SING N N 84
8K1 C4 H32 SING N N 85
8K1 N H33 SING N N 86
8K1 N H34 SING N N 87
8K1 O4 H35 SING N N 88
8K1 C29 H36 SING N N 89
8K1 C29 H37 SING N N 90
8K1 C26 H38 SING N N 91
8K1 C24 H39 SING N N 92
8K1 C17 H40 SING N N 93
8K1 C17 H41 SING N N 94
8K1 C17 H42 SING N N 95
#
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
8K1 SMILES ACDLabs 12.01 C1(C)(CCCC2(C1CC(C34C2C5CC(C3)C(C)(C4)O5)O)C)C(OP(O)(=O)OCC6C(O)C(O)C(O6)n7cnc8c7ncnc8N)=O
8K1 InChI InChI 1.03 InChI=1S/C30H42N5O10P/c1-27-5-4-6-28(2,17(27)8-18(36)30-9-14-7-15(22(27)30)44-29(14,3)11-30)26(39)45-46(40,41)42-10-16-20(37)21(38)25(43-16)35-13-34-19-23(31)32-12-33-24(19)35/h12-18,20-22,25,36-38H,4-11H2,1-3H3,(H,40,41)(H2,31,32,33)/t14-,15+,16-,17+,18-,20-,21-,22+,25-,27-,28-,29+,30+/m1/s1
8K1 InChIKey InChI 1.03 FXLLSKDPBMRMHG-INWXLQENSA-N
8K1 SMILES_CANONICAL CACTVS 3.385 C[C@]12C[C@]34C[C@H]1C[C@H](O2)[C@H]3[C@]5(C)CCC[C@](C)([C@H]5C[C@H]4O)C(=O)O[P](O)(=O)OC[C@H]6O[C@H]([C@H](O)[C@@H]6O)n7cnc8c(N)ncnc78
8K1 SMILES CACTVS 3.385 C[C]12C[C]34C[CH]1C[CH](O2)[CH]3[C]5(C)CCC[C](C)([CH]5C[CH]4O)C(=O)O[P](O)(=O)OC[CH]6O[CH]([CH](O)[CH]6O)n7cnc8c(N)ncnc78
8K1 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 C[C@@]12CCC[C@@]([C@H]1C[C@H]([C@]34[C@H]2[C@@H]5C[C@H](C3)[C@](C4)(O5)C)O)(C)C(=O)OP(=O)(O)OC[C@@H]6[C@H]([C@H]([C@@H](O6)n7cnc8c7ncnc8N)O)O
8K1 SMILES "OpenEye OEToolkits" 2.0.6 CC12CCCC(C1CC(C34C2C5CC(C3)C(C4)(O5)C)O)(C)C(=O)OP(=O)(O)OCC6C(C(C(O6)n7cnc8c7ncnc8N)O)O
#
_pdbx_chem_comp_identifier.comp_id 8K1
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program ACDLabs
_pdbx_chem_comp_identifier.program_version 12.01
_pdbx_chem_comp_identifier.identifier
"5'-O-[(R)-hydroxy{[(7beta,8alpha,9beta,10alpha,11beta,13alpha)-7-hydroxy-19-oxo-11,16-epoxykauran-19-yl]oxy}phosphoryl]adenosine"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
8K1 'Create component' 2017-02-10 RCSB
8K1 'Initial release' 2017-02-22 RCSB
#
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
8K1 C11 C 0.271 -5.075 1
8K1 C12 C -1.206 -5.342 2
8K1 C13 C 0.242 -6.575 3
8K1 C14 C 1.528 -7.338 4
8K1 C15 C 2.840 -6.607 5
8K1 C16 C 2.863 -5.107 6
8K1 C18 C 1.582 -4.339 7
8K1 C19 C 1.587 -2.841 8
8K1 C20 C 2.885 -2.122 9
8K1 C21 C 4.162 -2.862 10
8K1 C22 C 4.163 -1.370 11
8K1 C23 C 4.164 -4.366 12
8K1 C25 C 5.454 -3.619 13
8K1 C28 C 8.245 -2.891 14
8K1 O8 O 1.543 -0.619 15
8K1 P P 0.119 -1.096 16
8K1 O7 O -1.299 -1.579 17
8K1 O2 O -0.335 0.303 18
8K1 C9 C -1.768 0.596 19
8K1 C8 C -2.235 1.997 20
8K1 C7 C -1.379 3.230 21
8K1 O1 O 0.119 3.263 22
8K1 C6 C -2.288 4.423 23
8K1 O O -1.856 5.861 24
8K1 O9 O -3.671 2.428 25
8K1 C5 C -3.704 3.929 26
8K1 N4 N -4.939 4.779 27
8K1 C2 C -4.978 6.279 28
8K1 N2 N -3.886 7.312 29
8K1 C1 C -4.238 8.769 30
8K1 N1 N -5.674 9.200 31
8K1 C4 C -6.356 4.282 32
8K1 N3 N -7.266 5.473 33
8K1 C3 C -6.415 6.709 34
8K1 C C -6.762 8.163 35
8K1 N N -8.201 8.591 36
8K1 O3 O 0.605 -2.474 37
8K1 C10 C -0.303 -3.631 38
8K1 O6 O -1.787 -3.409 39
8K1 O4 O 2.898 -0.624 40
8K1 C29 C 5.464 -2.123 41
8K1 C27 C 6.746 -2.879 42
8K1 O5 O 6.723 -4.355 43
8K1 C26 C 6.746 -1.379 44
8K1 C24 C 5.443 -5.098 45
8K1 C17 C 4.154 -5.872 46
#
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
8K1 C27 C28 SINGLE BEGINDASH 1
8K1 C27 C29 SINGLE NONE 2
8K1 C27 C26 SINGLE NONE 3
8K1 C27 O5 SINGLE NONE 4
8K1 C21 C29 SINGLE BEGINDASH 5
8K1 C26 C22 SINGLE NONE 6
8K1 C26 C25 SINGLE NONE 7
8K1 O5 C24 SINGLE NONE 8
8K1 C22 C21 SINGLE NONE 9
8K1 C20 O4 SINGLE BEGINWEDGE 10
8K1 C25 C24 SINGLE NONE 11
8K1 C21 C20 SINGLE NONE 12
8K1 C21 C23 SINGLE NONE 13
8K1 C24 C23 SINGLE NONE 14
8K1 N C SINGLE NONE 15
8K1 C20 C19 SINGLE NONE 16
8K1 N1 C DOUBLE NONE 17
8K1 N1 C1 SINGLE NONE 18
8K1 C23 C16 SINGLE NONE 19
8K1 C C3 SINGLE NONE 20
8K1 C1 N2 DOUBLE NONE 21
8K1 C19 C18 SINGLE NONE 22
8K1 C16 C18 SINGLE NONE 23
8K1 C16 C17 SINGLE BEGINWEDGE 24
8K1 C16 C15 SINGLE NONE 25
8K1 C3 C2 DOUBLE NONE 26
8K1 C3 N3 SINGLE NONE 27
8K1 N2 C2 SINGLE NONE 28
8K1 C18 C11 SINGLE NONE 29
8K1 C15 C14 SINGLE NONE 30
8K1 C2 N4 SINGLE NONE 31
8K1 N3 C4 DOUBLE NONE 32
8K1 C11 C12 SINGLE BEGINDASH 33
8K1 C11 C13 SINGLE NONE 34
8K1 C11 C10 SINGLE NONE 35
8K1 O6 C10 DOUBLE NONE 36
8K1 C14 C13 SINGLE NONE 37
8K1 N4 C4 SINGLE NONE 38
8K1 C5 N4 SINGLE BEGINWEDGE 39
8K1 C10 O3 SINGLE NONE 40
8K1 C5 O9 SINGLE NONE 41
8K1 C5 C6 SINGLE NONE 42
8K1 O9 C8 SINGLE NONE 43
8K1 O3 P SINGLE NONE 44
8K1 C6 O SINGLE BEGINDASH 45
8K1 C6 C7 SINGLE NONE 46
8K1 O7 P DOUBLE NONE 47
8K1 O2 P SINGLE NONE 48
8K1 O2 C9 SINGLE NONE 49
8K1 P O8 SINGLE BEGINDASH 50
8K1 C8 C9 SINGLE BEGINWEDGE 51
8K1 C8 C7 SINGLE NONE 52
8K1 C7 O1 SINGLE BEGINDASH 53
#
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
8K1 MurckoScaffold S1 scaffold 'O=C(O[PH](=O)OC[C@@H]1CC[C@H](n2cnc3cncnc32)O1)C1CCCC2[C@@H]1CC[C@@]13CC4O[C@@H](C[C@@H]4C1)[C@@H]23' InChI=1S/C27H35N4O6P/c32-26(19-3-1-2-18-17(19)6-7-27-9-15-8-21(24(18)27)36-22(15)10-27)37-38(33)34-12-16-4-5-23(35-16)31-14-30-20-11-28-13-29-25(20)31/h11,13-19,21-24,38H,1-10,12H2/t15-,16+,17+,18-,19-,21+,22+,23-,24-,27+/m1/s1 NZRZBWUVLXMLLN-KAYCYBLQSA-N
8K1 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
8K1 cyclohexane F2 fragment C1CCCCC1 InChI=1S/C6H12/c1-2-4-6-5-3-1/h1-6H2 XDTMQSROBMDMFD-UHFFFAOYSA-N
8K1 cyclopentane F3 fragment C1CCCC1 InChI=1S/C5H10/c1-2-4-5-3-1/h1-5H2 RGSFGYAAUTVSQA-UHFFFAOYSA-N
8K1 imidazole F4 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
8K1 phosphate F5 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
8K1 purine F6 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
8K1 pyrimidine F7 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
8K1 ribose F8 fragment OCC1OCC(O)C1O InChI=1S/C5H10O4/c6-1-4-5(8)3(7)2-9-4/h3-8H,1-2H2 KZVAAIRBJJYZOW-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
8K1 C11 S1 1
8K1 C13 S1 1
8K1 C14 S1 1
8K1 C15 S1 1
8K1 C16 S1 1
8K1 C18 S1 1
8K1 C19 S1 1
8K1 C20 S1 1
8K1 C21 S1 1
8K1 C22 S1 1
8K1 C23 S1 1
8K1 C25 S1 1
8K1 P S1 1
8K1 O7 S1 1
8K1 O2 S1 1
8K1 C9 S1 1
8K1 C8 S1 1
8K1 C7 S1 1
8K1 C6 S1 1
8K1 O9 S1 1
8K1 C5 S1 1
8K1 N4 S1 1
8K1 C2 S1 1
8K1 N2 S1 1
8K1 C1 S1 1
8K1 N1 S1 1
8K1 C4 S1 1
8K1 N3 S1 1
8K1 C3 S1 1
8K1 C S1 1
8K1 O3 S1 1
8K1 C10 S1 1
8K1 O6 S1 1
8K1 C29 S1 1
8K1 C27 S1 1
8K1 O5 S1 1
8K1 C26 S1 1
8K1 C24 S1 1
8K1 N1 F1 1
8K1 C F1 1
8K1 C3 F1 1
8K1 C2 F1 1
8K1 N2 F1 1
8K1 C1 F1 1
8K1 N4 F1 1
8K1 C4 F1 1
8K1 N3 F1 1
8K1 N F1 1
8K1 C11 F2 1
8K1 C18 F2 1
8K1 C16 F2 1
8K1 C15 F2 1
8K1 C14 F2 1
8K1 C13 F2 1
8K1 C16 F2 2
8K1 C23 F2 2
8K1 C21 F2 2
8K1 C20 F2 2
8K1 C19 F2 2
8K1 C18 F2 2
8K1 C21 F2 3
8K1 C22 F2 3
8K1 C26 F2 3
8K1 C25 F2 3
8K1 C24 F2 3
8K1 C23 F2 3
8K1 C21 F3 1
8K1 C29 F3 1
8K1 C27 F3 1
8K1 C26 F3 1
8K1 C22 F3 1
8K1 C2 F4 1
8K1 C3 F4 1
8K1 N3 F4 1
8K1 C4 F4 1
8K1 N4 F4 1
8K1 O8 F5 1
8K1 P F5 1
8K1 O7 F5 1
8K1 O3 F5 1
8K1 O2 F5 1
8K1 N3 F6 1
8K1 C4 F6 1
8K1 N4 F6 1
8K1 C2 F6 1
8K1 C3 F6 1
8K1 C F6 1
8K1 N1 F6 1
8K1 C1 F6 1
8K1 N2 F6 1
8K1 C3 F7 1
8K1 C F7 1
8K1 N1 F7 1
8K1 C1 F7 1
8K1 N2 F7 1
8K1 C2 F7 1
8K1 C6 F8 1
8K1 C7 F8 1
8K1 C8 F8 1
8K1 O9 F8 1
8K1 C5 F8 1
8K1 C9 F8 1
8K1 O2 F8 1
8K1 O1 F8 1
8K1 O F8 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 8K1
_pdbe_chem_comp_rdkit_properties.exactmw 663.267
_pdbe_chem_comp_rdkit_properties.amw 663.665
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 15
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 14
_pdbe_chem_comp_rdkit_properties.NumHBD 5
_pdbe_chem_comp_rdkit_properties.NumHBA 15
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 46
_pdbe_chem_comp_rdkit_properties.NumAtoms 88
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 16
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.800
_pdbe_chem_comp_rdkit_properties.NumRings 9
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 7
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 7
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 1
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 4
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 14
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 324.433
_pdbe_chem_comp_rdkit_properties.tpsa 221.600
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.030
_pdbe_chem_comp_rdkit_properties.CrippenMR 155.219
_pdbe_chem_comp_rdkit_properties.chi0v 22.660
_pdbe_chem_comp_rdkit_properties.chi1v 13.718
_pdbe_chem_comp_rdkit_properties.chi2v 8.001
_pdbe_chem_comp_rdkit_properties.chi3v 8.001
_pdbe_chem_comp_rdkit_properties.chi4v 5.902
_pdbe_chem_comp_rdkit_properties.chi0n 63.766
_pdbe_chem_comp_rdkit_properties.chi1n 32.785
_pdbe_chem_comp_rdkit_properties.chi2n 7.297
_pdbe_chem_comp_rdkit_properties.chi3n 7.297
_pdbe_chem_comp_rdkit_properties.chi4n 5.330
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.230
_pdbe_chem_comp_rdkit_properties.kappa1 9.303
_pdbe_chem_comp_rdkit_properties.kappa2 9.911
_pdbe_chem_comp_rdkit_properties.kappa3 4.123
_pdbe_chem_comp_rdkit_properties.Phi 2.005
#
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
8K1 UniChem ZINC ZINC000584905492
8K1 UniChem PubChem 124201667
#
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
8K1 C11 -0.310 -0.613 0.517 ETKDGv3 1
8K1 C12 0.307 -0.879 1.915 ETKDGv3 2
8K1 C13 0.457 -1.537 -0.477 ETKDGv3 3
8K1 C14 -0.156 -1.586 -1.879 ETKDGv3 4
8K1 C15 -1.632 -2.002 -1.834 ETKDGv3 5
8K1 C16 -2.510 -1.076 -0.933 ETKDGv3 6
8K1 C18 -1.840 -1.013 0.495 ETKDGv3 7
8K1 C19 -2.740 -0.254 1.507 ETKDGv3 8
8K1 C20 -4.051 -1.027 1.752 ETKDGv3 9
8K1 C21 -4.852 -1.236 0.442 ETKDGv3 10
8K1 C22 -5.726 -0.039 0.016 ETKDGv3 11
8K1 C23 -3.937 -1.749 -0.759 ETKDGv3 12
8K1 C25 -5.689 -0.681 -2.349 ETKDGv3 13
8K1 C28 -8.098 -2.690 -0.754 ETKDGv3 14
8K1 O8 2.349 2.913 -2.398 ETKDGv3 15
8K1 P 1.321 2.853 -1.055 ETKDGv3 16
8K1 O7 0.103 3.708 -1.324 ETKDGv3 17
8K1 O2 2.144 3.457 0.312 ETKDGv3 18
8K1 C9 2.996 2.444 0.796 ETKDGv3 19
8K1 C8 3.973 3.036 1.816 ETKDGv3 20
8K1 C7 4.941 4.039 1.175 ETKDGv3 21
8K1 O1 4.591 5.359 1.506 ETKDGv3 22
8K1 C6 6.280 3.639 1.753 ETKDGv3 23
8K1 O 6.601 4.376 2.911 ETKDGv3 24
8K1 O9 4.710 1.990 2.418 ETKDGv3 25
8K1 C5 6.069 2.163 2.082 ETKDGv3 26
8K1 N4 6.414 1.309 0.940 ETKDGv3 27
8K1 C2 5.862 0.040 0.624 ETKDGv3 28
8K1 N2 4.623 -0.515 1.085 ETKDGv3 29
8K1 C1 4.325 -1.744 0.752 ETKDGv3 30
8K1 N1 5.240 -2.530 -0.051 ETKDGv3 31
8K1 C4 7.714 1.193 0.336 ETKDGv3 32
8K1 N3 7.911 0.068 -0.289 ETKDGv3 33
8K1 C3 6.701 -0.651 -0.097 ETKDGv3 34
8K1 C 6.378 -2.036 -0.463 ETKDGv3 35
8K1 N 7.274 -2.827 -1.242 ETKDGv3 36
8K1 O3 0.832 1.225 -0.798 ETKDGv3 37
8K1 C10 -0.068 0.856 0.207 ETKDGv3 38
8K1 O6 -0.630 1.747 0.902 ETKDGv3 39
8K1 O4 -4.830 -0.414 2.752 ETKDGv3 40
8K1 C29 -5.966 -2.285 0.606 ETKDGv3 41
8K1 C27 -6.666 -2.156 -0.757 ETKDGv3 42
8K1 O5 -5.862 -2.856 -1.697 ETKDGv3 43
8K1 C26 -6.562 -0.648 -1.117 ETKDGv3 44
8K1 C24 -4.861 -1.921 -2.038 ETKDGv3 45
8K1 C17 -2.599 0.310 -1.627 ETKDGv3 46
8K1 H1 -0.052 -0.158 2.678 ETKDGv3 47
8K1 H2 1.413 -0.770 1.879 ETKDGv3 48
8K1 H3 0.075 -1.907 2.266 ETKDGv3 49
8K1 H4 0.470 -2.578 -0.082 ETKDGv3 50
8K1 H5 1.521 -1.223 -0.562 ETKDGv3 51
8K1 H6 0.402 -2.335 -2.481 ETKDGv3 52
8K1 H7 -0.029 -0.616 -2.400 ETKDGv3 53
8K1 H8 -2.018 -2.012 -2.875 ETKDGv3 54
8K1 H9 -1.674 -3.051 -1.467 ETKDGv3 55
8K1 H10 -1.832 -2.068 0.857 ETKDGv3 56
8K1 H11 -2.964 0.772 1.153 ETKDGv3 57
8K1 H12 -2.237 -0.158 2.489 ETKDGv3 58
8K1 H13 -3.773 -2.032 2.139 ETKDGv3 59
8K1 H14 -5.165 0.863 -0.281 ETKDGv3 60
8K1 H15 -6.416 0.275 0.831 ETKDGv3 61
8K1 H16 -3.684 -2.797 -0.475 ETKDGv3 62
8K1 H17 -5.128 0.256 -2.512 ETKDGv3 63
8K1 H18 -6.316 -0.866 -3.250 ETKDGv3 64
8K1 H19 -8.543 -2.583 -1.766 ETKDGv3 65
8K1 H20 -8.101 -3.765 -0.475 ETKDGv3 66
8K1 H21 -8.719 -2.126 -0.026 ETKDGv3 67
8K1 H22 2.722 3.830 -2.389 ETKDGv3 68
8K1 H23 2.394 1.664 1.311 ETKDGv3 69
8K1 H24 3.586 1.965 -0.021 ETKDGv3 70
8K1 H25 3.386 3.538 2.617 ETKDGv3 71
8K1 H26 4.968 3.915 0.066 ETKDGv3 72
8K1 H27 5.160 5.949 0.946 ETKDGv3 73
8K1 H28 7.087 3.797 1.006 ETKDGv3 74
8K1 H29 5.889 4.220 3.587 ETKDGv3 75
8K1 H30 6.698 1.866 2.950 ETKDGv3 76
8K1 H31 3.395 -2.182 1.087 ETKDGv3 77
8K1 H32 8.480 1.953 0.412 ETKDGv3 78
8K1 H33 7.028 -3.811 -1.491 ETKDGv3 79
8K1 H34 8.182 -2.433 -1.572 ETKDGv3 80
8K1 H35 -4.864 0.560 2.566 ETKDGv3 81
8K1 H36 -5.572 -3.312 0.776 ETKDGv3 82
8K1 H37 -6.654 -2.028 1.445 ETKDGv3 83
8K1 H38 -7.529 -0.123 -1.279 ETKDGv3 84
8K1 H39 -4.300 -2.270 -2.928 ETKDGv3 85
8K1 H40 -2.981 0.201 -2.661 ETKDGv3 86
8K1 H41 -1.618 0.790 -1.756 ETKDGv3 87
8K1 H42 -3.215 1.034 -1.074 ETKDGv3 88
#