data_A1JOQ # _chem_comp.id A1JOQ _chem_comp.name "alpha-presodorifen diphosphate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H30 O7 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "[(~{E})-3-methyl-5-[(1~{S},4~{R},5~{R})-1,2,3,4,5-pentamethylcyclopent-2-en-1-yl]pent-2-enyl] phosphono hydrogen phosphate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-09-05 _chem_comp.pdbx_modified_date 2025-12-26 _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 396.353 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JOQ _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 9SM5 _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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1JOQ C4 C1 C 0 1 N N N N N N 24.379 10.074 59.632 1.074 -3.195 0.902 C4 A1JOQ 1 A1JOQ C5 C2 C 0 1 N N N N N N 23.170 7.857 60.328 2.740 -1.782 -0.526 C5 A1JOQ 2 A1JOQ C6 C3 C 0 1 N N N N N N 22.899 7.543 58.858 3.237 -0.698 0.433 C6 A1JOQ 3 A1JOQ C7 C4 C 0 1 N N S N N N 21.408 7.689 58.556 4.684 -0.338 0.090 C7 A1JOQ 4 A1JOQ C8 C5 C 0 1 N N R N N N 21.197 8.274 57.164 4.767 0.270 -1.329 C8 A1JOQ 5 A1JOQ C10 C6 C 0 1 N N N N N N 20.325 9.525 57.215 6.095 -0.083 -2.001 C10 A1JOQ 6 A1JOQ C13 C7 C 0 1 N N N N N N 20.860 6.441 58.523 5.187 0.752 1.008 C13 A1JOQ 7 A1JOQ C15 C8 C 0 1 N N N N N N 20.877 5.512 59.726 5.629 0.530 2.432 C15 A1JOQ 8 A1JOQ O2B O1 O 0 1 N N N N N N 27.019 15.070 61.976 -6.393 0.427 -0.907 O2B A1JOQ 9 A1JOQ PB P1 P 0 1 N N N N N N 25.660 15.197 62.824 -5.544 1.271 -0.038 PB A1JOQ 10 A1JOQ O3B O2 O 0 1 N N N N N N 26.066 14.735 64.315 -5.498 2.770 -0.625 O3B A1JOQ 11 A1JOQ O1B O3 O 0 1 N N N N N N 25.131 16.582 62.795 -6.157 1.297 1.451 O1B A1JOQ 12 A1JOQ O3A O4 O 0 1 N N N N N N 24.653 14.089 62.241 -4.053 0.666 0.006 O3A A1JOQ 13 A1JOQ PA P2 P 0 1 N N N N N N 23.348 13.598 63.075 -3.453 -0.826 0.081 PA A1JOQ 14 A1JOQ O2A O5 O 0 1 N N N N N N 23.773 13.661 64.632 -3.634 -1.403 1.573 O2A A1JOQ 15 A1JOQ O1A O6 O 0 1 N N N N N N 22.154 14.436 62.802 -4.174 -1.696 -0.875 O1A A1JOQ 16 A1JOQ O1 O7 O 0 1 N N N N N N 23.133 12.043 62.720 -1.888 -0.794 -0.296 O1 A1JOQ 17 A1JOQ C1 C9 C 0 1 N N N N N N 22.649 11.659 61.430 -1.094 -1.976 -0.422 C1 A1JOQ 18 A1JOQ C2 C10 C 0 1 N N N N N N 22.403 10.148 61.394 0.319 -1.595 -0.782 C2 A1JOQ 19 A1JOQ C3 C11 C 0 1 N N N N N N 23.325 9.359 60.462 1.327 -2.162 -0.166 C3 A1JOQ 20 A1JOQ C14 C12 C 0 1 N N N N N N 20.721 8.542 59.625 5.578 -1.576 0.193 C14 A1JOQ 21 A1JOQ C9 C13 C 0 1 N N R N N N 20.459 7.194 56.433 4.686 1.783 -1.018 C9 A1JOQ 22 A1JOQ C11 C14 C 0 1 N N N N N N 21.299 6.745 55.253 3.240 2.272 -1.119 C11 A1JOQ 23 A1JOQ C12 C15 C 0 1 N N N N N N 20.346 6.153 57.340 5.188 1.910 0.406 C12 A1JOQ 24 A1JOQ C25 C16 C 0 1 N N N N N N 19.661 4.836 57.024 5.631 3.202 1.042 C25 A1JOQ 25 A1JOQ H1 H1 H 0 1 N N N N N N 24.352 11.151 59.854 0.994 -2.703 1.871 H1 A1JOQ 26 A1JOQ H2 H2 H 0 1 N N N N N N 25.373 9.673 59.878 0.145 -3.721 0.685 H2 A1JOQ 27 A1JOQ H3 H3 H 0 1 N N N N N N 24.174 9.915 58.563 1.899 -3.907 0.922 H3 A1JOQ 28 A1JOQ H4 H4 H 0 1 N N N N N N 22.328 7.511 60.946 2.765 -1.402 -1.548 H4 A1JOQ 29 A1JOQ H5 H5 H 0 1 N N N N N N 24.093 7.355 60.653 3.384 -2.658 -0.449 H5 A1JOQ 30 A1JOQ H6 H6 H 0 1 N N N N N N 23.215 6.512 58.642 2.610 0.188 0.336 H6 A1JOQ 31 A1JOQ H7 H7 H 0 1 N N N N N N 23.468 8.241 58.226 3.187 -1.069 1.457 H7 A1JOQ 32 A1JOQ H8 H8 H 0 1 N N N N N N 22.162 8.491 56.682 3.924 -0.049 -1.941 H8 A1JOQ 33 A1JOQ H9 H9 H 0 1 N N N N N N 20.859 10.324 57.750 6.186 -1.166 -2.080 H9 A1JOQ 34 A1JOQ H10 H10 H 0 1 N N N N N N 20.100 9.857 56.191 6.126 0.358 -2.997 H10 A1JOQ 35 A1JOQ H11 H11 H 0 1 N N N N N N 19.386 9.296 57.741 6.919 0.309 -1.405 H11 A1JOQ 36 A1JOQ H12 H12 H 0 1 N N N N N N 21.368 6.016 60.572 6.710 0.397 2.460 H12 A1JOQ 37 A1JOQ H13 H13 H 0 1 N N N N N N 19.845 5.252 60.003 5.354 1.395 3.036 H13 A1JOQ 38 A1JOQ H14 H14 H 0 1 N N N N N N 21.431 4.596 59.474 5.142 -0.360 2.829 H14 A1JOQ 39 A1JOQ H15 H15 H 0 1 N N N N N N 26.987 14.504 64.336 -6.364 3.197 -0.680 H15 A1JOQ 40 A1JOQ H16 H16 H 0 1 N N N N N N 25.706 17.130 62.274 -5.650 1.833 2.076 H16 A1JOQ 41 A1JOQ H17 H17 H 0 1 N N N N N N 23.175 14.231 65.101 -3.187 -0.881 2.253 H17 A1JOQ 42 A1JOQ H18 H18 H 0 1 N N N N N N 23.395 11.925 60.667 -1.095 -2.516 0.525 H18 A1JOQ 43 A1JOQ H19 H19 H 0 1 N N N N N N 21.707 12.187 61.222 -1.509 -2.612 -1.204 H19 A1JOQ 44 A1JOQ H20 H20 H 0 1 N N N N N N 21.633 9.673 61.984 0.501 -0.856 -1.547 H20 A1JOQ 45 A1JOQ H21 H21 H 0 1 N N N N N N 20.891 8.096 60.616 5.234 -2.332 -0.513 H21 A1JOQ 46 A1JOQ H22 H22 H 0 1 N N N N N N 21.138 9.560 59.605 6.607 -1.301 -0.041 H22 A1JOQ 47 A1JOQ H23 H23 H 0 1 N N N N N N 19.641 8.584 59.422 5.530 -1.976 1.206 H23 A1JOQ 48 A1JOQ H24 H24 H 0 1 N N N N N N 19.480 7.558 56.089 5.326 2.345 -1.698 H24 A1JOQ 49 A1JOQ H25 H25 H 0 1 N N N N N N 20.769 5.951 54.706 2.622 1.729 -0.404 H25 A1JOQ 50 A1JOQ H26 H26 H 0 1 N N N N N N 21.474 7.599 54.582 3.201 3.338 -0.897 H26 A1JOQ 51 A1JOQ H27 H27 H 0 1 N N N N N N 22.264 6.360 55.615 2.867 2.096 -2.128 H27 A1JOQ 52 A1JOQ H28 H28 H 0 1 N N N N N N 19.704 4.179 57.905 4.777 3.683 1.519 H28 A1JOQ 53 A1JOQ H29 H29 H 0 1 N N N N N N 18.610 5.024 56.758 6.396 2.995 1.791 H29 A1JOQ 54 A1JOQ H30 H30 H 0 1 N N N N N N 20.172 4.350 56.179 6.040 3.862 0.277 H30 A1JOQ 55 # 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 A1JOQ C11 C9 SING N N 1 A1JOQ C9 C8 SING N N 2 A1JOQ C9 C12 SING N N 3 A1JOQ C25 C12 SING N N 4 A1JOQ C8 C10 SING N N 5 A1JOQ C8 C7 SING N N 6 A1JOQ C12 C13 DOUB N N 7 A1JOQ C13 C7 SING N N 8 A1JOQ C13 C15 SING N N 9 A1JOQ C7 C6 SING N N 10 A1JOQ C7 C14 SING N N 11 A1JOQ C6 C5 SING N N 12 A1JOQ C4 C3 SING N N 13 A1JOQ C5 C3 SING N N 14 A1JOQ C3 C2 DOUB N E 15 A1JOQ C2 C1 SING N N 16 A1JOQ C1 O1 SING N N 17 A1JOQ O2B PB DOUB N N 18 A1JOQ O3A PB SING N N 19 A1JOQ O3A PA SING N N 20 A1JOQ O1 PA SING N N 21 A1JOQ O1B PB SING N N 22 A1JOQ O1A PA DOUB N N 23 A1JOQ PB O3B SING N N 24 A1JOQ PA O2A SING N N 25 A1JOQ C4 H1 SING N N 26 A1JOQ C4 H2 SING N N 27 A1JOQ C4 H3 SING N N 28 A1JOQ C5 H4 SING N N 29 A1JOQ C5 H5 SING N N 30 A1JOQ C6 H6 SING N N 31 A1JOQ C6 H7 SING N N 32 A1JOQ C8 H8 SING N N 33 A1JOQ C10 H9 SING N N 34 A1JOQ C10 H10 SING N N 35 A1JOQ C10 H11 SING N N 36 A1JOQ C15 H12 SING N N 37 A1JOQ C15 H13 SING N N 38 A1JOQ C15 H14 SING N N 39 A1JOQ O3B H15 SING N N 40 A1JOQ O1B H16 SING N N 41 A1JOQ O2A H17 SING N N 42 A1JOQ C1 H18 SING N N 43 A1JOQ C1 H19 SING N N 44 A1JOQ C2 H20 SING N N 45 A1JOQ C14 H21 SING N N 46 A1JOQ C14 H22 SING N N 47 A1JOQ C14 H23 SING N N 48 A1JOQ C9 H24 SING N N 49 A1JOQ C11 H25 SING N N 50 A1JOQ C11 H26 SING N N 51 A1JOQ C11 H27 SING N N 52 A1JOQ C25 H28 SING N N 53 A1JOQ C25 H29 SING N N 54 A1JOQ C25 H30 SING N N 55 # 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 A1JOQ InChI InChI 1.06 "InChI=1S/C16H30O7P2/c1-11(8-10-22-25(20,21)23-24(17,18)19)7-9-16(6)14(4)12(2)13(3)15(16)5/h8,12,14H,7,9-10H2,1-6H3,(H,20,21)(H2,17,18,19)/b11-8+/t12-,14+,16-/m0/s1" A1JOQ InChIKey InChI 1.06 ZODJECNQEXUGEC-WBUYXRLSSA-N A1JOQ SMILES_CANONICAL CACTVS 3.385 "C[C@@H]1[C@@H](C)[C@](C)(CCC(/C)=C/CO[P](O)(=O)O[P](O)(O)=O)C(=C1C)C" A1JOQ SMILES CACTVS 3.385 "C[CH]1[CH](C)[C](C)(CCC(C)=CCO[P](O)(=O)O[P](O)(O)=O)C(=C1C)C" A1JOQ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H]1[C@H]([C@](C(=C1C)C)(C)CC/C(=C/COP(=O)(O)OP(=O)(O)O)/C)C" A1JOQ SMILES "OpenEye OEToolkits" 2.0.7 "CC1C(C(C(=C1C)C)(C)CCC(=CCOP(=O)(O)OP(=O)(O)O)C)C" # _pdbx_chem_comp_identifier.comp_id A1JOQ _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 "[(~{E})-3-methyl-5-[(1~{S},4~{R},5~{R})-1,2,3,4,5-pentamethylcyclopent-2-en-1-yl]pent-2-enyl] phosphono hydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1JOQ "Create component" 2025-09-05 PDBE A1JOQ "Modify name" 2025-09-08 PDBE A1JOQ "Initial release" 2025-12-31 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1JOQ _pdbx_chem_comp_synonyms.name "[(~{E})-3-methyl-5-[(1~{S},4~{R},5~{R})-1,2,3,4,5-pentamethylcyclopent-2-en-1-yl]pent-2-enyl] phosphono hydrogen phosphate" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type IUPAC #