data_P8F
# 
_chem_comp.id                                    P8F 
_chem_comp.name                                  Pentacycline 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C29 H30 F N3 O7" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "(4S,4aS,5aR,14aS)-4-(dimethylamino)-10-[(3-fluoranylazetidin-1-yl)methyl]-3,12,14,14a-tetrakis(oxidanyl)-1,13-bis(oxidanylidene)-4a,5,5a,6-tetrahydro-4H-pentacene-2-carboxamide; Pentacycline TP-038" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-02-09 
_chem_comp.pdbx_modified_date                    2023-07-25 
_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                        551.563 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     P8F 
_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        8CGI 
_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.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 
P8F C1  C1  C 0 1 N N N 189.404 154.311 173.011 4.762   -3.793 -0.533 C1  P8F 1  
P8F N1  N1  N 0 1 N N N 190.435 153.452 172.426 5.505   -2.537 -0.359 N1  P8F 2  
P8F C2  C2  C 0 1 N N N 190.796 152.426 173.414 6.905   -2.692 -0.774 C2  P8F 3  
P8F C3  C3  C 0 1 N N S 190.237 152.938 171.058 4.858   -1.438 -1.088 C3  P8F 4  
P8F C4  C4  C 0 1 N N N 190.288 154.044 170.021 5.742   -0.229 -1.031 C4  P8F 5  
P8F O1  O1  O 0 1 N N N 191.018 155.098 170.373 6.784   -0.148 -1.872 O1  P8F 6  
P8F C5  C5  C 0 1 N N N 189.635 153.918 168.780 5.523   0.798  -0.147 C5  P8F 7  
P8F C6  C6  C 0 1 N N N 190.073 154.752 167.613 6.442   1.946  -0.116 C6  P8F 8  
P8F N2  N2  N 0 1 N N N 189.567 154.470 166.414 6.340   2.917  -1.045 N2  P8F 9  
P8F O2  O2  O 0 1 N N N 190.833 155.706 167.815 7.295   2.020  0.748  O2  P8F 10 
P8F C7  C7  C 0 1 N N N 188.504 153.048 168.689 4.379   0.757  0.763  C7  P8F 11 
P8F O3  O3  O 0 1 N N N 188.027 152.603 167.643 4.053   1.743  1.391  O3  P8F 12 
P8F C8  C8  C 0 1 N N S 187.882 152.663 170.051 3.606   -0.541 0.906  C8  P8F 13 
P8F O4  O4  O 0 1 N N N 187.407 153.834 170.700 4.266   -1.418 1.821  O4  P8F 14 
P8F C9  C9  C 0 1 N N N 186.741 151.698 169.832 2.228   -0.198 1.405  C9  P8F 15 
P8F O5  O5  O 0 1 N N N 185.588 152.306 169.582 2.076   0.048  2.721  O5  P8F 16 
P8F C10 C10 C 0 1 N N N 186.907 150.348 169.849 1.148   -0.122 0.624  C10 P8F 17 
P8F C11 C11 C 0 1 N N N 185.795 149.470 169.561 -0.112  0.178  1.223  C11 P8F 18 
P8F O6  O6  O 0 1 N N N 184.636 149.902 169.308 -0.231  0.207  2.435  O6  P8F 19 
P8F C12 C12 C 0 1 Y N N 186.035 148.029 169.607 -1.269  0.452  0.349  C12 P8F 20 
P8F C13 C13 C 0 1 Y N N 187.353 147.529 169.501 -1.063  0.681  -1.026 C13 P8F 21 
P8F C14 C14 C 0 1 Y N N 187.571 146.174 169.567 -2.113  0.916  -1.853 C14 P8F 22 
P8F C15 C15 C 0 1 Y N N 186.522 145.244 169.730 -3.426  0.952  -1.344 C15 P8F 23 
P8F C16 C16 C 0 1 Y N N 186.766 143.847 169.774 -4.523  1.181  -2.190 C16 P8F 24 
P8F C17 C17 C 0 1 Y N N 185.734 142.968 169.938 -5.781  1.218  -1.669 C17 P8F 25 
P8F C18 C18 C 0 1 Y N N 184.383 143.429 170.077 -5.999  1.032  -0.306 C18 P8F 26 
P8F C19 C19 C 0 1 N N N 183.263 142.429 170.240 -7.404  1.083  0.237  C19 P8F 27 
P8F N3  N3  N 0 1 N N N 182.658 142.423 171.567 -7.990  -0.264 0.206  N3  P8F 28 
P8F C20 C20 C 0 1 N N N 183.552 142.165 172.723 -8.762  -0.476 -1.033 C20 P8F 29 
P8F C21 C21 C 0 1 N N N 182.999 140.744 172.779 -9.825  -1.185 -0.182 C21 P8F 30 
P8F F1  F1  F 0 1 N N N 182.627 140.354 174.042 -9.596  -2.554 -0.003 F1  P8F 31 
P8F C22 C22 C 0 1 N N N 181.847 141.224 171.901 -9.267  -0.302 0.942  C22 P8F 32 
P8F C23 C23 C 0 1 Y N N 184.132 144.783 170.029 -4.958  0.804  0.544  C23 P8F 33 
P8F C24 C24 C 0 1 Y N N 185.174 145.724 169.847 -3.648  0.755  0.041  C24 P8F 34 
P8F C25 C25 C 0 1 Y N N 184.950 147.143 169.787 -2.550  0.508  0.890  C25 P8F 35 
P8F O7  O7  O 0 1 N N N 183.699 147.620 169.891 -2.740  0.327  2.219  O7  P8F 36 
P8F C26 C26 C 0 1 N N N 188.478 148.506 169.343 0.338   0.680  -1.585 C26 P8F 37 
P8F C27 C27 C 0 1 N N R 188.218 149.690 170.268 1.188   -0.363 -0.862 C27 P8F 38 
P8F C28 C28 C 0 1 N N N 189.382 150.675 170.238 2.630   -0.292 -1.372 C28 P8F 39 
P8F C29 C29 C 0 1 N N S 189.000 152.019 170.879 3.494   -1.178 -0.478 C29 P8F 40 
P8F H1  H1  H 0 1 N N N 189.704 154.605 174.027 5.291   -4.601 -0.026 H1  P8F 41 
P8F H2  H2  H 0 1 N N N 189.281 155.211 172.390 3.765   -3.688 -0.105 H2  P8F 42 
P8F H3  H3  H 0 1 N N N 188.451 153.763 173.055 4.680   -4.023 -1.595 H3  P8F 43 
P8F H5  H5  H 0 1 N N N 190.923 152.895 174.401 6.949   -2.851 -1.852 H5  P8F 44 
P8F H6  H6  H 0 1 N N N 189.997 151.671 173.467 7.462   -1.791 -0.516 H6  P8F 45 
P8F H7  H7  H 0 1 N N N 191.737 151.943 173.113 7.343   -3.549 -0.263 H7  P8F 46 
P8F H8  H8  H 0 1 N N N 191.105 152.296 170.847 4.728   -1.733 -2.130 H8  P8F 47 
P8F H10 H10 H 0 1 N N N 191.185 155.638 169.609 7.295   0.673  -1.860 H10 P8F 48 
P8F H12 H12 H 0 1 N N N 189.798 155.042 165.627 6.988   3.638  -1.067 H12 P8F 49 
P8F H13 H13 H 0 1 N N N 188.956 153.687 166.301 5.617   2.895  -1.692 H13 P8F 50 
P8F H14 H14 H 0 1 N N N 187.024 153.599 171.537 4.307   -1.083 2.727  H14 P8F 51 
P8F H15 H15 H 0 1 N N N 184.917 151.656 169.413 2.369   -0.641 3.333  H15 P8F 52 
P8F H16 H16 H 0 1 N N N 188.584 145.807 169.491 -1.941  1.077  -2.907 H16 P8F 53 
P8F H17 H17 H 0 1 N N N 187.776 143.476 169.677 -4.371  1.327  -3.249 H17 P8F 54 
P8F H18 H18 H 0 1 N N N 185.939 141.908 169.963 -6.622  1.395  -2.322 H18 P8F 55 
P8F H19 H19 H 0 1 N N N 182.480 142.665 169.504 -7.384  1.447  1.264  H19 P8F 56 
P8F H20 H20 H 0 1 N N N 183.665 141.425 170.039 -8.005  1.755  -0.375 H20 P8F 57 
P8F H22 H22 H 0 1 N N N 184.625 142.227 172.491 -9.116  0.449  -1.487 H22 P8F 58 
P8F H23 H23 H 0 1 N N N 183.333 142.774 173.613 -8.266  -1.135 -1.746 H23 P8F 59 
P8F H24 H24 H 0 1 N N N 183.648 140.029 172.252 -10.851 -0.955 -0.467 H24 P8F 60 
P8F H25 H25 H 0 1 N N N 180.917 141.441 172.448 -9.199  -0.813 1.903  H25 P8F 61 
P8F H26 H26 H 0 1 N N N 181.625 140.571 171.044 -9.755  0.670  1.015  H26 P8F 62 
P8F H27 H27 H 0 1 N N N 183.116 145.135 170.133 -5.140  0.662  1.599  H27 P8F 63 
P8F H28 H28 H 0 1 N N N 183.700 148.553 169.712 -2.702  1.143  2.736  H28 P8F 64 
P8F H29 H29 H 0 1 N N N 189.429 148.025 169.614 0.303   0.444  -2.648 H29 P8F 65 
P8F H30 H30 H 0 1 N N N 188.526 148.852 168.300 0.782   1.666  -1.449 H30 P8F 66 
P8F H31 H31 H 0 1 N N N 188.106 149.313 171.295 0.795   -1.357 -1.075 H31 P8F 67 
P8F H32 H32 H 0 1 N N N 190.230 150.244 170.791 2.674   -0.651 -2.400 H32 P8F 68 
P8F H33 H33 H 0 1 N N N 189.676 150.849 169.192 2.987   0.736  -1.324 H33 P8F 69 
P8F H34 H34 H 0 1 N N N 188.596 151.809 171.880 2.993   -2.140 -0.369 H34 P8F 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 
P8F N2  C6  SING N N 1  
P8F C6  O2  DOUB N N 2  
P8F C6  C5  SING N N 3  
P8F O3  C7  DOUB N N 4  
P8F C7  C5  SING N N 5  
P8F C7  C8  SING N N 6  
P8F C5  C4  DOUB N N 7  
P8F O6  C11 DOUB N N 8  
P8F C26 C13 SING N N 9  
P8F C26 C27 SING N N 10 
P8F C13 C14 DOUB Y N 11 
P8F C13 C12 SING Y N 12 
P8F C11 C12 SING N N 13 
P8F C11 C10 SING N N 14 
P8F C14 C15 SING Y N 15 
P8F O5  C9  SING N N 16 
P8F C12 C25 DOUB Y N 17 
P8F C15 C16 SING Y N 18 
P8F C15 C24 DOUB Y N 19 
P8F C16 C17 DOUB Y N 20 
P8F C25 C24 SING Y N 21 
P8F C25 O7  SING N N 22 
P8F C9  C10 DOUB N N 23 
P8F C9  C8  SING N N 24 
P8F C24 C23 SING Y N 25 
P8F C10 C27 SING N N 26 
P8F C17 C18 SING Y N 27 
P8F C4  O1  SING N N 28 
P8F C4  C3  SING N N 29 
P8F C23 C18 DOUB Y N 30 
P8F C8  O4  SING N N 31 
P8F C8  C29 SING N N 32 
P8F C18 C19 SING N N 33 
P8F C28 C27 SING N N 34 
P8F C28 C29 SING N N 35 
P8F C19 N3  SING N N 36 
P8F C29 C3  SING N N 37 
P8F C3  N1  SING N N 38 
P8F N3  C22 SING N N 39 
P8F N3  C20 SING N N 40 
P8F C22 C21 SING N N 41 
P8F N1  C1  SING N N 42 
P8F N1  C2  SING N N 43 
P8F C20 C21 SING N N 44 
P8F C21 F1  SING N N 45 
P8F C1  H1  SING N N 46 
P8F C1  H2  SING N N 47 
P8F C1  H3  SING N N 48 
P8F C2  H5  SING N N 49 
P8F C2  H6  SING N N 50 
P8F C2  H7  SING N N 51 
P8F C3  H8  SING N N 52 
P8F O1  H10 SING N N 53 
P8F N2  H12 SING N N 54 
P8F N2  H13 SING N N 55 
P8F O4  H14 SING N N 56 
P8F O5  H15 SING N N 57 
P8F C14 H16 SING N N 58 
P8F C16 H17 SING N N 59 
P8F C17 H18 SING N N 60 
P8F C19 H19 SING N N 61 
P8F C19 H20 SING N N 62 
P8F C20 H22 SING N N 63 
P8F C20 H23 SING N N 64 
P8F C21 H24 SING N N 65 
P8F C22 H25 SING N N 66 
P8F C22 H26 SING N N 67 
P8F C23 H27 SING N N 68 
P8F O7  H28 SING N N 69 
P8F C26 H29 SING N N 70 
P8F C26 H30 SING N N 71 
P8F C27 H31 SING N N 72 
P8F C28 H32 SING N N 73 
P8F C28 H33 SING N N 74 
P8F C29 H34 SING N N 75 
# 
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 
P8F InChI            InChI                1.06  "InChI=1S/C29H30FN3O7/c1-32(2)22-18-8-15-7-14-6-13-4-3-12(9-33-10-16(30)11-33)5-17(13)23(34)19(14)24(35)20(15)26(37)29(18,40)27(38)21(25(22)36)28(31)39/h3-6,15-16,18,22,34,36-37,40H,7-11H2,1-2H3,(H2,31,39)/t15-,18-,22-,29-/m0/s1" 
P8F InChIKey         InChI                1.06  DAUIQSOIFWOKJQ-MGVDVOGZSA-N                                                                                                                                                                                                           
P8F SMILES_CANONICAL CACTVS               3.385 "CN(C)[C@H]1[C@@H]2C[C@@H]3Cc4cc5ccc(CN6CC(F)C6)cc5c(O)c4C(=O)C3=C(O)[C@]2(O)C(=O)C(=C1O)C(N)=O"                                                                                                                                      
P8F SMILES           CACTVS               3.385 "CN(C)[CH]1[CH]2C[CH]3Cc4cc5ccc(CN6CC(F)C6)cc5c(O)c4C(=O)C3=C(O)[C]2(O)C(=O)C(=C1O)C(N)=O"                                                                                                                                            
P8F SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN(C)[C@H]1[C@@H]2C[C@@H]3Cc4cc5ccc(cc5c(c4C(=O)C3=C([C@@]2(C(=O)C(=C1O)C(=O)N)O)O)O)CN6CC(C6)F"                                                                                                                                     
P8F SMILES           "OpenEye OEToolkits" 2.0.7 "CN(C)C1C2CC3Cc4cc5ccc(cc5c(c4C(=O)C3=C(C2(C(=O)C(=C1O)C(=O)N)O)O)O)CN6CC(C6)F"                                                                                                                                                       
# 
_pdbx_chem_comp_identifier.comp_id           P8F 
_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        "(4~{S},4~{a}~{S},5~{a}~{R},14~{a}~{S})-4-(dimethylamino)-10-[(3-fluoranylazetidin-1-yl)methyl]-3,12,14,14~{a}-tetrakis(oxidanyl)-1,13-bis(oxidanylidene)-4~{a},5,5~{a},6-tetrahydro-4~{H}-pentacene-2-carboxamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
P8F "Create component"     2023-02-09 PDBE 
P8F "Initial release"      2023-07-26 RCSB 
P8F "Modify aromatic_flag" 2023-07-25 PDBE 
P8F "Modify synonyms"      2023-07-25 PDBE 
# 
loop_
_pdbx_chem_comp_synonyms.ordinal 
_pdbx_chem_comp_synonyms.comp_id 
_pdbx_chem_comp_synonyms.name 
_pdbx_chem_comp_synonyms.provenance 
_pdbx_chem_comp_synonyms.type 
1 P8F "(4S,4aS,5aR,14aS)-4-(dimethylamino)-10-[(3-fluoranylazetidin-1-yl)methyl]-3,12,14,14a-tetrakis(oxidanyl)-1,13-bis(oxidanylidene)-4a,5,5a,6-tetrahydro-4H-pentacene-2-carboxamide" PDB    ? 
2 P8F "Pentacycline TP-038"                                                                                                                                                              AUTHOR ? 
# 
