data_XLK # _chem_comp.id XLK _chem_comp.name "(5R)-5-[(1R,3aS,3bR,5aR,7R,9aS,9bS,11S,11aR)-7,11-dihydroxy-9a,11a-dimethylhexadecahydro-1H-cyclopenta[a]phenanthren-1-yl]-1-fluorohexan-2-one (non-preferred name)" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C25 H41 F O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-11-29 _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 408.590 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XLK _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 8FAO _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 XLK C4 C1 C 0 1 N N N N N N -66.143 -8.115 -20.621 4.164 -0.079 0.378 C4 XLK 1 XLK C14 C2 C 0 1 N N R N N N -74.448 -7.002 -17.165 -4.696 1.049 -0.561 C14 XLK 2 XLK C5 C3 C 0 1 N N R N N N -66.876 -7.191 -19.640 2.829 -0.273 -0.343 C5 XLK 3 XLK C6 C4 C 0 1 N N N N N N -66.697 -5.730 -20.054 2.718 -1.720 -0.830 C6 XLK 4 XLK C11 C5 C 0 1 N N R N N N -71.644 -7.657 -17.713 -1.785 1.151 -0.237 C11 XLK 5 XLK C7 C6 C 0 1 N N R N N N -68.347 -7.631 -19.590 1.680 0.030 0.621 C7 XLK 6 XLK C8 C7 C 0 1 N N N N N N -68.478 -9.148 -19.264 1.753 1.502 1.098 C8 XLK 7 XLK C9 C8 C 0 1 N N N N N N -69.846 -9.337 -18.586 0.400 2.156 0.709 C9 XLK 8 XLK C10 C9 C 0 1 N N S N N N -70.506 -7.957 -18.679 -0.549 0.956 0.621 C10 XLK 9 XLK C12 C10 C 0 1 N N N N N N -72.745 -8.715 -17.770 -2.692 2.240 0.340 C12 XLK 10 XLK C13 C11 C 0 1 N N N N N N -73.883 -8.373 -16.817 -3.941 2.378 -0.533 C13 XLK 11 XLK C3 C12 C 0 1 N N N N N N -64.765 -7.601 -21.045 5.312 -0.260 -0.618 C3 XLK 12 XLK C1 C13 C 0 1 N N N N N N -62.727 -9.045 -20.848 7.921 -0.196 -0.670 C1 XLK 13 XLK C15 C14 C 0 1 N N N N N N -75.090 -7.040 -18.550 -5.113 0.670 0.862 C15 XLK 14 XLK C16 C15 C 0 1 N N R N N N -75.726 -5.724 -18.946 -5.869 -0.660 0.836 C16 XLK 15 XLK C17 C16 C 0 1 N N N N N N -74.733 -4.588 -18.821 -4.963 -1.751 0.262 C17 XLK 16 XLK C18 C17 C 0 1 N N N N N N -74.080 -4.557 -17.437 -4.547 -1.372 -1.161 C18 XLK 17 XLK C19 C18 C 0 1 N N S N N N -73.379 -5.878 -17.051 -3.789 -0.043 -1.132 C19 XLK 18 XLK C2 C19 C 0 1 N N N N N N -63.971 -8.732 -21.600 6.627 -0.069 0.093 C2 XLK 19 XLK C20 C20 C 0 1 N N N N N N -72.851 -5.696 -15.614 -3.368 0.336 -2.554 C20 XLK 20 XLK C21 C21 C 0 1 N N S N N N -72.204 -6.246 -18.005 -2.548 -0.183 -0.250 C21 XLK 21 XLK C22 C22 C 0 1 N N N N N N -71.077 -5.206 -18.027 -1.681 -1.320 -0.779 C22 XLK 22 XLK C23 C23 C 0 1 N N S N N N -69.898 -5.567 -18.942 -0.364 -1.433 0.007 C23 XLK 23 XLK C24 C24 C 0 1 N N R N N N -69.337 -6.960 -18.592 0.340 -0.095 -0.097 C24 XLK 24 XLK C25 C25 C 0 1 N N N N N N -68.709 -6.915 -17.187 0.506 0.288 -1.570 C25 XLK 25 XLK O1 O1 O 0 1 N N N N N N -64.325 -9.435 -22.520 6.645 0.186 1.273 O1 XLK 26 XLK O2 O2 O 0 1 N N N N N N -76.157 -5.816 -20.317 -6.257 -1.014 2.165 O2 XLK 27 XLK O3 O3 O 0 1 N N N N N N -70.314 -5.505 -20.329 -0.640 -1.732 1.377 O3 XLK 28 XLK H1 H1 H 0 1 N N N N N N -66.764 -8.226 -21.522 4.206 0.924 0.802 H1 XLK 29 XLK H2 H2 H 0 1 N N N N N N -66.014 -9.097 -20.142 4.256 -0.815 1.176 H2 XLK 30 XLK H3 H3 H 0 1 N N N N N N -75.241 -6.774 -16.437 -5.584 1.148 -1.185 H3 XLK 31 XLK H4 H4 H 0 1 N N N N N N -66.438 -7.327 -18.640 2.775 0.403 -1.197 H4 XLK 32 XLK H5 H5 H 0 1 N N N N N N -67.227 -5.079 -19.343 2.772 -2.395 0.023 H5 XLK 33 XLK H6 H6 H 0 1 N N N N N N -65.626 -5.478 -20.054 1.766 -1.858 -1.344 H6 XLK 34 XLK H7 H7 H 0 1 N N N N N N -67.109 -5.582 -21.063 3.536 -1.936 -1.517 H7 XLK 35 XLK H8 H8 H 0 1 N N N N N N -71.232 -7.650 -16.693 -1.491 1.417 -1.252 H8 XLK 36 XLK H9 H9 H 0 1 N N N N N N -68.762 -7.485 -20.598 1.715 -0.647 1.474 H9 XLK 37 XLK H10 H10 H 0 1 N N N N N N -68.428 -9.740 -20.189 1.890 1.539 2.178 H10 XLK 38 XLK H11 H11 H 0 1 N N N N N N -67.672 -9.461 -18.585 2.575 2.016 0.598 H11 XLK 39 XLK H12 H12 H 0 1 N N N N N N -70.444 -10.092 -19.118 0.071 2.852 1.481 H12 XLK 40 XLK H13 H13 H 0 1 N N N N N N -69.722 -9.640 -17.536 0.478 2.661 -0.254 H13 XLK 41 XLK H14 H14 H 0 1 N N N N N N -70.919 -7.871 -19.695 -0.818 0.610 1.619 H14 XLK 42 XLK H15 H15 H 0 1 N N N N N N -73.139 -8.769 -18.796 -2.985 1.969 1.354 H15 XLK 43 XLK H16 H16 H 0 1 N N N N N N -72.321 -9.690 -17.488 -2.154 3.188 0.359 H16 XLK 44 XLK H17 H17 H 0 1 N N N N N N -74.676 -9.130 -16.908 -3.647 2.650 -1.547 H17 XLK 45 XLK H18 H18 H 0 1 N N N N N N -73.504 -8.361 -15.784 -4.586 3.155 -0.122 H18 XLK 46 XLK H19 H19 H 0 1 N N N N N N -64.245 -7.179 -20.172 5.270 -1.264 -1.041 H19 XLK 47 XLK H20 H20 H 0 1 N N N N N N -64.883 -6.822 -21.813 5.220 0.476 -1.416 H20 XLK 48 XLK H21 H21 H 0 1 N N N N N N -61.882 -9.111 -21.549 7.995 -1.196 -1.096 H21 XLK 49 XLK H22 H22 H 0 1 N N N N N N -62.533 -8.249 -20.114 7.944 0.543 -1.471 H22 XLK 50 XLK H24 H24 H 0 1 N N N N N N -75.866 -7.819 -18.555 -4.225 0.570 1.486 H24 XLK 51 XLK H25 H25 H 0 1 N N N N N N -74.314 -7.290 -19.289 -5.759 1.447 1.271 H25 XLK 52 XLK H26 H26 H 0 1 N N N N N N -76.586 -5.526 -18.290 -6.758 -0.560 0.213 H26 XLK 53 XLK H27 H27 H 0 1 N N N N N N -73.949 -4.714 -19.582 -4.075 -1.852 0.886 H27 XLK 54 XLK H28 H28 H 0 1 N N N N N N -75.258 -3.636 -18.989 -5.503 -2.698 0.242 H28 XLK 55 XLK H29 H29 H 0 1 N N N N N N -73.332 -3.750 -17.424 -3.902 -2.149 -1.570 H29 XLK 56 XLK H30 H30 H 0 1 N N N N N N -74.859 -4.346 -16.690 -5.435 -1.270 -1.785 H30 XLK 57 XLK H31 H31 H 0 1 N N N N N N -73.686 -5.436 -14.946 -2.828 1.282 -2.533 H31 XLK 58 XLK H32 H32 H 0 1 N N N N N N -72.386 -6.633 -15.273 -2.721 -0.442 -2.961 H32 XLK 59 XLK H33 H33 H 0 1 N N N N N N -72.104 -4.889 -15.598 -4.254 0.436 -3.181 H33 XLK 60 XLK H34 H34 H 0 1 N N N N N N -72.625 -6.279 -19.021 -2.848 -0.428 0.769 H34 XLK 61 XLK H35 H35 H 0 1 N N N N N N -70.694 -5.092 -17.002 -2.230 -2.258 -0.692 H35 XLK 62 XLK H36 H36 H 0 1 N N N N N N -71.498 -4.250 -18.370 -1.453 -1.136 -1.829 H36 XLK 63 XLK H37 H37 H 0 1 N N N N N N -69.100 -4.829 -18.773 0.260 -2.215 -0.425 H37 XLK 64 XLK H38 H38 H 0 1 N N N N N N -69.411 -6.441 -16.486 1.211 -0.394 -2.045 H38 XLK 65 XLK H39 H39 H 0 1 N N N N N N -68.491 -7.939 -16.850 -0.459 0.222 -2.073 H39 XLK 66 XLK H40 H40 H 0 1 N N N N N N -67.776 -6.333 -17.221 0.883 1.308 -1.640 H40 XLK 67 XLK H41 H41 H 0 1 N N N N N N -76.781 -6.527 -20.406 -6.742 -1.848 2.225 H41 XLK 68 XLK H42 H42 H 0 1 N N N N N N -70.655 -4.639 -20.519 -1.090 -2.576 1.513 H42 XLK 69 XLK F1 F1 F 0 1 N Y N N N N -62.915 -10.574 -20.015 8.997 0.023 0.197 F1 XLK 70 # 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 XLK O1 C2 DOUB N N 1 XLK C2 C3 SING N N 2 XLK C2 C1 SING N N 3 XLK C3 C4 SING N N 4 XLK C4 C5 SING N N 5 XLK O3 C23 SING N N 6 XLK O2 C16 SING N N 7 XLK C6 C5 SING N N 8 XLK C5 C7 SING N N 9 XLK C7 C8 SING N N 10 XLK C7 C24 SING N N 11 XLK C8 C9 SING N N 12 XLK C16 C17 SING N N 13 XLK C16 C15 SING N N 14 XLK C23 C24 SING N N 15 XLK C23 C22 SING N N 16 XLK C17 C18 SING N N 17 XLK C10 C24 SING N N 18 XLK C10 C9 SING N N 19 XLK C10 C11 SING N N 20 XLK C24 C25 SING N N 21 XLK C15 C14 SING N N 22 XLK C22 C21 SING N N 23 XLK C21 C11 SING N N 24 XLK C21 C19 SING N N 25 XLK C12 C11 SING N N 26 XLK C12 C13 SING N N 27 XLK C18 C19 SING N N 28 XLK C14 C19 SING N N 29 XLK C14 C13 SING N N 30 XLK C19 C20 SING N N 31 XLK C4 H1 SING N N 32 XLK C4 H2 SING N N 33 XLK C14 H3 SING N N 34 XLK C5 H4 SING N N 35 XLK C6 H5 SING N N 36 XLK C6 H6 SING N N 37 XLK C6 H7 SING N N 38 XLK C11 H8 SING N N 39 XLK C7 H9 SING N N 40 XLK C8 H10 SING N N 41 XLK C8 H11 SING N N 42 XLK C9 H12 SING N N 43 XLK C9 H13 SING N N 44 XLK C10 H14 SING N N 45 XLK C12 H15 SING N N 46 XLK C12 H16 SING N N 47 XLK C13 H17 SING N N 48 XLK C13 H18 SING N N 49 XLK C3 H19 SING N N 50 XLK C3 H20 SING N N 51 XLK C1 H21 SING N N 52 XLK C1 H22 SING N N 53 XLK C15 H24 SING N N 54 XLK C15 H25 SING N N 55 XLK C16 H26 SING N N 56 XLK C17 H27 SING N N 57 XLK C17 H28 SING N N 58 XLK C18 H29 SING N N 59 XLK C18 H30 SING N N 60 XLK C20 H31 SING N N 61 XLK C20 H32 SING N N 62 XLK C20 H33 SING N N 63 XLK C21 H34 SING N N 64 XLK C22 H35 SING N N 65 XLK C22 H36 SING N N 66 XLK C23 H37 SING N N 67 XLK C25 H38 SING N N 68 XLK C25 H39 SING N N 69 XLK C25 H40 SING N N 70 XLK O2 H41 SING N N 71 XLK O3 H42 SING N N 72 XLK C1 F1 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 XLK SMILES ACDLabs 12.01 "FCC(=O)CCC(C)C1CCC2C3CCC4CC(O)CCC4(C)C3CC(O)C21C" XLK InChI InChI 1.06 "InChI=1S/C25H41FO3/c1-15(4-6-18(28)14-26)20-8-9-21-19-7-5-16-12-17(27)10-11-24(16,2)22(19)13-23(29)25(20,21)3/h15-17,19-23,27,29H,4-14H2,1-3H3/t15-,16-,17-,19+,20-,21+,22+,23+,24+,25-/m1/s1" XLK InChIKey InChI 1.06 OEUSHDZYFDYIIU-INXSVRIUSA-N XLK SMILES_CANONICAL CACTVS 3.385 "C[C@H](CCC(=O)CF)[C@H]1CC[C@H]2[C@@H]3CC[C@@H]4C[C@H](O)CC[C@]4(C)[C@H]3C[C@H](O)[C@]12C" XLK SMILES CACTVS 3.385 "C[CH](CCC(=O)CF)[CH]1CC[CH]2[CH]3CC[CH]4C[CH](O)CC[C]4(C)[CH]3C[CH](O)[C]12C" XLK SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H](CCC(=O)CF)[C@H]1CC[C@@H]2[C@@]1([C@H](C[C@H]3[C@H]2CC[C@H]4[C@@]3(CC[C@H](C4)O)C)O)C" XLK SMILES "OpenEye OEToolkits" 2.0.7 "CC(CCC(=O)CF)C1CCC2C1(C(CC3C2CCC4C3(CCC(C4)O)C)O)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 XLK "SYSTEMATIC NAME" ACDLabs 12.01 "(5R)-5-[(1R,3aS,3bR,5aR,7R,9aS,9bS,11S,11aR)-7,11-dihydroxy-9a,11a-dimethylhexadecahydro-1H-cyclopenta[a]phenanthren-1-yl]-1-fluorohexan-2-one (non-preferred name)" XLK "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(5~{R})-5-[(3~{R},5~{R},8~{R},9~{S},10~{S},12~{S},13~{R},14~{S},17~{R})-10,13-dimethyl-3,12-bis(oxidanyl)-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1~{H}-cyclopenta[a]phenanthren-17-yl]-1-fluoranyl-hexan-2-one" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XLK "Create component" 2022-11-29 RCSB XLK "Initial release" 2023-12-13 RCSB XLK "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id XLK _pdbx_chem_comp_pcm.modified_residue_id CYS _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 C1 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #