data_XBI
# 
_chem_comp.id                                    XBI 
_chem_comp.name                                  "(3~{R})-3-[(1~{S})-2-[(1~{R},3~{S},4~{a}~{S},7~{S},8~{a}~{S})-5,5,7,8~{a}-tetramethyl-2-methylidene-3-oxidanyl-3,4,4~{a},6,7,8-hexahydro-1~{H}-naphthalen-1-yl]-1-oxidanyl-ethyl]pyrrolidine-2,5-dione" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H33 N O4" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-06 
_chem_comp.pdbx_modified_date                    2024-11-22 
_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                        363.491 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XBI 
_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        8P9A 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_chem_comp.pdbx_pcm                              ? 
# 
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 
XBI C1  C1  C 0 1 N N N N N N 197.355 45.220 189.122 -3.480 1.464  0.033  C1  XBI 1  
XBI C2  C2  C 0 1 N N N N N N 198.036 46.187 188.146 -2.674 2.728  -0.264 C2  XBI 2  
XBI C3  C3  C 0 1 N N S N N N 198.902 45.395 187.166 -1.292 2.664  0.379  C3  XBI 3  
XBI C4  C4  C 0 1 N N N N N N 198.049 44.349 186.441 -0.536 1.456  -0.173 C4  XBI 4  
XBI C5  C5  C 0 1 N N S N N N 197.367 43.356 187.405 -1.269 0.163  0.188  C5  XBI 5  
XBI C6  C6  C 0 1 N N R N N N 196.439 42.364 186.643 -0.557 -1.005 -0.527 C6  XBI 6  
XBI C8  C7  C 0 1 N N S N N N 194.940 42.197 188.718 -2.834 -2.270 -0.572 C8  XBI 7  
XBI C9  C8  C 0 1 N N N N N N 195.811 43.233 189.415 -3.465 -1.053 0.119  C9  XBI 8  
XBI C12 C9  C 0 1 N N N N N N 195.557 40.173 187.443 -0.753 -3.359 0.137  C12 XBI 9  
XBI C13 C10 C 0 1 N N N N N N 197.158 41.545 185.554 0.849  -1.180 0.049  C13 XBI 10 
XBI C16 C11 C 0 1 N N N N N N 196.999 42.482 182.467 4.238  0.189  -1.232 C16 XBI 11 
XBI C17 C12 C 0 1 N N N N N N 196.422 42.386 181.077 5.141  0.657  -0.112 C17 XBI 12 
XBI C18 C13 C 0 1 N N N N N N 194.803 41.491 182.447 3.688  -0.719 0.920  C18 XBI 13 
XBI C19 C14 C 0 1 N N N N N N 198.463 42.555 188.132 -1.170 -0.078 1.694  C19 XBI 14 
XBI C20 C15 C 0 1 N N N N N N 199.595 46.329 186.176 -0.514 3.940  0.031  C20 XBI 15 
XBI C21 C16 C 0 1 N N N N N N 196.321 46.134 189.792 -4.737 1.522  -0.866 C21 XBI 16 
XBI N   N1  N 0 1 N N N N N N 195.195 41.782 181.163 4.747  0.092  1.036  N   XBI 17 
XBI C   C17 C 0 1 N N N N N N 198.206 44.780 190.295 -3.956 1.483  1.485  C   XBI 18 
XBI O   O1  O 0 1 N N N N N N 194.391 41.313 189.701 -3.423 -3.467 -0.059 O   XBI 19 
XBI C10 C18 C 0 1 N N S N N N 196.477 44.198 188.418 -2.707 0.205  -0.306 C10 XBI 20 
XBI C14 C19 C 0 1 N N S N N N 196.241 40.985 184.473 1.813  -0.227 -0.661 C14 XBI 21 
XBI C15 C20 C 0 1 N N R N N N 195.868 42.013 183.392 3.243  -0.754 -0.525 C15 XBI 22 
XBI C7  C21 C 0 1 N N N N N N 195.651 41.481 187.589 -1.349 -2.271 -0.294 C7  XBI 23 
XBI O1  O2  O 0 1 N N N N N N 193.767 40.906 182.751 3.170  -1.331 1.830  O1  XBI 24 
XBI O2  O3  O 0 1 N N N N N N 196.940 42.789 180.038 6.074  1.421  -0.235 O2  XBI 25 
XBI O3  O4  O 0 1 N N N N N N 196.873 39.853 183.874 1.466  -0.142 -2.045 O3  XBI 26 
XBI H1  H1  H 0 1 N N N N N N 198.668 46.891 188.708 -2.566 2.837  -1.347 H1  XBI 27 
XBI H2  H2  H 0 1 N N N N N N 197.270 46.746 187.589 -3.214 3.596  0.121  H2  XBI 28 
XBI H3  H3  H 0 1 N N N N N N 199.677 44.867 187.741 -1.379 2.595  1.461  H3  XBI 29 
XBI H4  H4  H 0 1 N N N N N N 197.270 44.870 185.865 -0.465 1.541  -1.259 H4  XBI 30 
XBI H5  H5  H 0 1 N N N N N N 198.696 43.783 185.755 0.468  1.449  0.252  H5  XBI 31 
XBI H6  H6  H 0 1 N N N N N N 195.701 42.987 186.116 -0.499 -0.793 -1.592 H6  XBI 32 
XBI H7  H7  H 0 1 N N N N N N 194.104 42.748 188.263 -3.010 -2.208 -1.647 H7  XBI 33 
XBI H8  H8  H 0 1 N N N N N N 196.596 42.712 189.982 -4.509 -0.990 -0.198 H8  XBI 34 
XBI H9  H9  H 0 1 N N N N N N 195.184 43.815 190.107 -3.438 -1.197 1.194  H9  XBI 35 
XBI H10 H10 H 0 1 N N N N N N 194.965 39.593 188.136 0.322  -3.380 0.243  H10 XBI 36 
XBI H11 H11 H 0 1 N N N N N N 196.072 39.682 186.631 -1.337 -4.233 0.386  H11 XBI 37 
XBI H12 H12 H 0 1 N N N N N N 197.670 40.702 186.041 0.836  -0.956 1.115  H12 XBI 38 
XBI H13 H13 H 0 1 N N N N N N 197.902 42.195 185.070 1.178  -2.208 -0.102 H13 XBI 39 
XBI H14 H14 H 0 1 N N N N N N 197.878 41.829 182.568 3.714  1.033  -1.681 H14 XBI 40 
XBI H15 H15 H 0 1 N N N N N N 197.284 43.519 182.698 4.809  -0.352 -1.987 H15 XBI 41 
XBI H16 H16 H 0 1 N N N N N N 197.996 41.840 188.825 -1.756 0.674  2.221  H16 XBI 42 
XBI H17 H17 H 0 1 N N N N N N 199.068 42.008 187.394 -1.555 -1.070 1.929  H17 XBI 43 
XBI H18 H18 H 0 1 N N N N N N 199.108 43.245 188.696 -0.127 -0.010 2.005  H18 XBI 44 
XBI H19 H19 H 0 1 N N N N N N 200.198 47.066 186.727 -1.053 4.808  0.409  H19 XBI 45 
XBI H20 H20 H 0 1 N N N N N N 200.249 45.742 185.514 0.475  3.899  0.489  H20 XBI 46 
XBI H21 H21 H 0 1 N N N N N N 198.838 46.852 185.573 -0.410 4.018  -1.051 H21 XBI 47 
XBI H22 H22 H 0 1 N N N N N N 195.747 45.558 190.533 -5.290 2.438  -0.658 H22 XBI 48 
XBI H23 H23 H 0 1 N N N N N N 196.837 46.965 190.294 -4.435 1.510  -1.913 H23 XBI 49 
XBI H24 H24 H 0 1 N N N N N N 195.637 46.534 189.029 -5.371 0.660  -0.660 H24 XBI 50 
XBI H25 H25 H 0 1 N N N N N N 194.635 41.572 180.362 5.191  0.258  1.882  H25 XBI 51 
XBI H26 H26 H 0 1 N N N N N N 197.628 44.092 190.930 -4.471 0.549  1.711  H26 XBI 52 
XBI H27 H27 H 0 1 N N N N N N 199.105 44.267 189.923 -3.098 1.594  2.148  H27 XBI 53 
XBI H28 H28 H 0 1 N N N N N N 198.503 45.661 190.883 -4.640 2.319  1.632  H28 XBI 54 
XBI H29 H29 H 0 1 N N N N N N 193.961 41.821 190.379 -3.072 -4.278 -0.451 H29 XBI 55 
XBI H30 H30 H 0 1 N N N N N N 195.696 44.720 187.846 -2.650 0.161  -1.422 H30 XBI 56 
XBI H31 H31 H 0 1 N N N N N N 195.309 40.660 184.959 1.745  0.762  -0.208 H31 XBI 57 
XBI H32 H32 H 0 1 N N N N N N 195.463 42.900 183.901 3.321  -1.764 -0.927 H32 XBI 58 
XBI H33 H33 H 0 1 N N N N N N 197.100 39.223 184.548 1.449  -0.995 -2.499 H33 XBI 59 
# 
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 
XBI O2  C17 DOUB N N 1  
XBI C17 N   SING N N 2  
XBI C17 C16 SING N N 3  
XBI N   C18 SING N N 4  
XBI C18 O1  DOUB N N 5  
XBI C18 C15 SING N N 6  
XBI C16 C15 SING N N 7  
XBI C15 C14 SING N N 8  
XBI O3  C14 SING N N 9  
XBI C14 C13 SING N N 10 
XBI C13 C6  SING N N 11 
XBI C20 C3  SING N N 12 
XBI C4  C3  SING N N 13 
XBI C4  C5  SING N N 14 
XBI C6  C5  SING N N 15 
XBI C6  C7  SING N N 16 
XBI C3  C2  SING N N 17 
XBI C5  C19 SING N N 18 
XBI C5  C10 SING N N 19 
XBI C12 C7  DOUB N N 20 
XBI C7  C8  SING N N 21 
XBI C2  C1  SING N N 22 
XBI C10 C1  SING N N 23 
XBI C10 C9  SING N N 24 
XBI C8  C9  SING N N 25 
XBI C8  O   SING N N 26 
XBI C1  C21 SING N N 27 
XBI C1  C   SING N N 28 
XBI C2  H1  SING N N 29 
XBI C2  H2  SING N N 30 
XBI C3  H3  SING N N 31 
XBI C4  H4  SING N N 32 
XBI C4  H5  SING N N 33 
XBI C6  H6  SING N N 34 
XBI C8  H7  SING N N 35 
XBI C9  H8  SING N N 36 
XBI C9  H9  SING N N 37 
XBI C12 H10 SING N N 38 
XBI C12 H11 SING N N 39 
XBI C13 H12 SING N N 40 
XBI C13 H13 SING N N 41 
XBI C16 H14 SING N N 42 
XBI C16 H15 SING N N 43 
XBI C19 H16 SING N N 44 
XBI C19 H17 SING N N 45 
XBI C19 H18 SING N N 46 
XBI C20 H19 SING N N 47 
XBI C20 H20 SING N N 48 
XBI C20 H21 SING N N 49 
XBI C21 H22 SING N N 50 
XBI C21 H23 SING N N 51 
XBI C21 H24 SING N N 52 
XBI N   H25 SING N N 53 
XBI C   H26 SING N N 54 
XBI C   H27 SING N N 55 
XBI C   H28 SING N N 56 
XBI O   H29 SING N N 57 
XBI C10 H30 SING N N 58 
XBI C14 H31 SING N N 59 
XBI C15 H32 SING N N 60 
XBI O3  H33 SING N N 61 
# 
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 
XBI InChI            InChI                1.06  "InChI=1S/C21H33NO4/c1-11-9-20(3,4)17-8-15(23)12(2)14(21(17,5)10-11)7-16(24)13-6-18(25)22-19(13)26/h11,13-17,23-24H,2,6-10H2,1,3-5H3,(H,22,25,26)/t11-,13+,14-,15-,16-,17-,21+/m0/s1" 
XBI InChIKey         InChI                1.06  QJMIOMDKNQXZMN-LYGYNGHHSA-N                                                                                                                                                           
XBI SMILES_CANONICAL CACTVS               3.385 "C[C@H]1CC(C)(C)[C@@H]2C[C@H](O)C(=C)[C@H](C[C@H](O)[C@H]3CC(=O)NC3=O)[C@@]2(C)C1"                                                                                                    
XBI SMILES           CACTVS               3.385 "C[CH]1CC(C)(C)[CH]2C[CH](O)C(=C)[CH](C[CH](O)[CH]3CC(=O)NC3=O)[C]2(C)C1"                                                                                                             
XBI SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H]1C[C@]2([C@@H](C[C@@H](C(=C)[C@@H]2C[C@@H]([C@H]3CC(=O)NC3=O)O)O)C(C1)(C)C)C"                                                                                                 
XBI SMILES           "OpenEye OEToolkits" 2.0.7 "CC1CC(C2CC(C(=C)C(C2(C1)C)CC(C3CC(=O)NC3=O)O)O)(C)C"                                                                                                                                 
# 
_pdbx_chem_comp_identifier.comp_id           XBI 
_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        "(3~{R})-3-[(1~{S})-2-[(1~{R},3~{S},4~{a}~{S},7~{S},8~{a}~{S})-5,5,7,8~{a}-tetramethyl-2-methylidene-3-oxidanyl-3,4,4~{a},6,7,8-hexahydro-1~{H}-naphthalen-1-yl]-1-oxidanyl-ethyl]pyrrolidine-2,5-dione" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
XBI "Create component" 2023-06-06 PDBE 
XBI "Initial release"  2024-11-27 RCSB 
# 
