data_GXF
# 
_chem_comp.id                                    GXF 
_chem_comp.name                                  "5'-S-{3-[N'-(4'-chloro[1,1'-biphenyl]-3-yl)carbamimidamido]propyl}-5'-thioadenosine" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C26 H29 Cl N8 O3 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-05-01 
_chem_comp.pdbx_modified_date                    2024-04-12 
_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                        569.078 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     GXF 
_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        8SIO 
_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 
GXF N1  N1  N  0 1 Y N N N N N 18.852 20.387 39.395 -9.102 0.458  -2.361 N1  GXF 1  
GXF C7  C1  C  0 1 N N N N N N 16.247 12.761 40.866 -1.893 -0.620 2.309  C7  GXF 2  
GXF C8  C2  C  0 1 N N N N N N 14.165 11.520 39.393 0.692  -1.679 1.804  C8  GXF 3  
GXF N2  N2  N  0 1 Y N N N N N 18.489 18.690 41.066 -7.672 1.207  -0.707 N2  GXF 4  
GXF C9  C3  C  0 1 N N N N N N 14.687 11.722 37.974 1.986  -1.610 0.991  C9  GXF 5  
GXF O1  O1  O  0 1 N N N N N N 16.097 14.412 44.079 -4.329 1.531  3.644  O1  GXF 6  
GXF C1  C4  C  0 1 Y N N N N N 19.137 19.720 40.517 -8.788 1.305  -1.398 C1  GXF 7  
GXF C5  C5  C  0 1 N N R N N N 16.672 16.238 41.554 -4.870 0.528  0.649  C5  GXF 8  
GXF C6  C6  C  0 1 N N S N N N 16.657 13.934 41.739 -2.961 0.418  1.957  C6  GXF 9  
GXF N3  N3  N  0 1 Y N N N N N 15.875 18.299 38.676 -6.058 -1.569 -2.020 N3  GXF 10 
GXF C4  C7  C  0 1 Y N N N N N 15.647 17.351 39.552 -5.175 -1.245 -1.121 C4  GXF 11 
GXF C3  C8  C  0 1 Y N N N N N 17.011 18.927 39.158 -7.092 -0.695 -1.973 C3  GXF 12 
GXF C2  C9  C  0 1 Y N N N N N 17.439 18.331 40.330 -6.803 0.233  -0.957 C2  GXF 13 
GXF N4  N4  N  0 1 Y N N N N N 16.565 17.295 40.564 -5.589 -0.140 -0.439 N4  GXF 14 
GXF CL  CL1 CL 0 0 N N N N N N 7.085  6.693  45.224 4.801  5.497  0.161  CL  GXF 15 
GXF C18 C10 C  0 1 Y N N N N N 7.557  6.926  43.552 5.265  3.876  -0.255 C18 GXF 16 
GXF C17 C11 C  0 1 Y N N N N N 7.767  5.824  42.751 5.842  3.618  -1.486 C17 GXF 17 
GXF C16 C12 C  0 1 Y N N N N N 8.299  6.001  41.484 6.212  2.332  -1.821 C16 GXF 18 
GXF C19 C13 C  0 1 Y N N N N N 7.809  8.206  43.088 5.061  2.847  0.649  C19 GXF 19 
GXF C20 C14 C  0 1 Y N N N N N 8.330  8.373  41.813 5.428  1.558  0.323  C20 GXF 20 
GXF C15 C15 C  0 1 Y N N N N N 8.605  7.274  40.993 6.004  1.292  -0.917 C15 GXF 21 
GXF C14 C16 C  0 1 Y N N N N N 9.166  7.450  39.627 6.400  -0.093 -1.273 C14 GXF 22 
GXF C13 C17 C  0 1 Y N N N N N 10.346 8.171  39.409 6.192  -1.132 -0.369 C13 GXF 23 
GXF C21 C18 C  0 1 Y N N N N N 8.510  6.916  38.527 6.976  -0.359 -2.514 C21 GXF 24 
GXF C22 C19 C  0 1 Y N N N N N 8.976  7.147  37.246 7.344  -1.648 -2.843 C22 GXF 25 
GXF C23 C20 C  0 1 Y N N N N N 10.105 7.914  37.036 7.143  -2.679 -1.945 C23 GXF 26 
GXF C12 C21 C  0 1 Y N N N N N 10.811 8.419  38.121 6.565  -2.424 -0.708 C12 GXF 27 
GXF N6  N5  N  0 1 N N N N N N 12.046 8.836  37.601 6.363  -3.471 0.199  N6  GXF 28 
GXF C11 C22 C  0 1 N N N N N N 13.330 8.488  37.856 5.199  -3.533 0.931  C11 GXF 29 
GXF N7  N6  N  0 1 N N N N N N 13.502 7.274  38.255 5.060  -4.438 1.858  N7  GXF 30 
GXF N5  N7  N  0 1 N N N N N N 14.301 9.337  37.508 4.183  -2.640 0.683  N5  GXF 31 
GXF C10 C23 C  0 1 N N N N N N 14.061 10.703 37.055 2.944  -2.706 1.462  C10 GXF 32 
GXF S   S1  S  0 1 N N N N N N 14.481 12.945 40.469 -0.443 -0.379 1.245  S   GXF 33 
GXF O   O2  O  0 1 N N N N N N 17.020 15.047 40.882 -3.472 0.164  0.637  O   GXF 34 
GXF C24 C24 C  0 1 N N S N N N 15.610 14.466 42.738 -4.146 0.304  2.936  C24 GXF 35 
GXF C25 C25 C  0 1 N N R N N N 15.369 15.913 42.285 -5.365 0.016  2.026  C25 GXF 36 
GXF O2  O3  O  0 1 N N N N N N 15.177 16.757 43.414 -6.510 0.751  2.461  O2  GXF 37 
GXF C   C26 C  0 1 Y N N N N N 17.774 20.005 38.672 -8.295 -0.549 -2.683 C   GXF 38 
GXF N   N8  N  0 1 N N N N N N 17.547 20.605 37.499 -8.633 -1.432 -3.693 N   GXF 39 
GXF H1  H1  H  0 1 N N N N N N 16.412 11.818 41.407 -1.602 -0.501 3.352  H1  GXF 40 
GXF H2  H2  H  0 1 N N N N N N 16.840 12.760 39.939 -2.295 -1.621 2.155  H2  GXF 41 
GXF H3  H3  H  0 1 N N N N N N 13.079 11.349 39.347 0.226  -2.654 1.663  H3  GXF 42 
GXF H4  H4  H  0 1 N N N N N N 14.658 10.637 39.826 0.919  -1.534 2.861  H4  GXF 43 
GXF H5  H5  H  0 1 N N N N N N 15.780 11.600 37.965 1.760  -1.755 -0.065 H5  GXF 44 
GXF H6  H6  H  0 1 N N N N N N 14.428 12.734 37.629 2.452  -0.635 1.132  H6  GXF 45 
GXF H7  H7  H  0 1 N N N N N N 15.433 14.745 44.671 -5.062 1.516  4.275  H7  GXF 46 
GXF H8  H8  H  0 1 N N N N N N 20.011 20.060 41.053 -9.472 2.109  -1.170 H8  GXF 47 
GXF H9  H9  H  0 1 N N N N N N 17.440 16.499 42.297 -4.985 1.610  0.577  H9  GXF 48 
GXF H10 H10 H  0 1 N N N N N N 17.543 13.631 42.317 -2.535 1.420  2.005  H10 GXF 49 
GXF H11 H11 H  0 1 N N N N N N 14.808 16.674 39.481 -4.250 -1.773 -0.941 H11 GXF 50 
GXF H12 H12 H  0 1 N N N N N N 7.520  4.835  43.107 6.002  4.425  -2.186 H12 GXF 51 
GXF H13 H13 H  0 1 N N N N N N 8.481  5.137  40.862 6.662  2.132  -2.782 H13 GXF 52 
GXF H14 H14 H  0 1 N N N N N N 7.603  9.064  43.711 4.615  3.055  1.610  H14 GXF 53 
GXF H15 H15 H  0 1 N N N N N N 8.527  9.370  41.447 5.269  0.756  1.029  H15 GXF 54 
GXF H16 H16 H  0 1 N N N N N N 10.905 8.541  40.255 5.743  -0.932 0.592  H16 GXF 55 
GXF H17 H17 H  0 1 N N N N N N 7.626  6.313  38.673 7.134  0.444  -3.218 H17 GXF 56 
GXF H18 H18 H  0 1 N N N N N N 8.452  6.724  36.402 7.790  -1.852 -3.806 H18 GXF 57 
GXF H19 H19 H  0 1 N N N N N N 10.439 8.121  36.030 7.432  -3.686 -2.208 H19 GXF 58 
GXF H20 H20 H  0 1 N N N N N N 11.960 9.537  36.894 7.044  -4.152 0.312  H20 GXF 59 
GXF H21 H21 H  0 1 N N N N N N 12.639 6.773  38.313 5.804  -5.017 2.086  H21 GXF 60 
GXF H22 H22 H  0 1 N N N N N N 15.247 9.018  37.561 4.287  -1.966 -0.007 H22 GXF 61 
GXF H23 H23 H  0 1 N N N N N N 14.488 10.823 36.048 3.170  -2.561 2.519  H23 GXF 62 
GXF H24 H24 H  0 1 N N N N N N 12.976 10.879 37.017 2.478  -3.681 1.321  H24 GXF 63 
GXF H25 H25 H  0 1 N N N N N N 14.679 13.889 42.633 -3.986 -0.518 3.634  H25 GXF 64 
GXF H26 H26 H  0 1 N N N N N N 14.518 15.958 41.589 -5.580 -1.052 1.989  H26 GXF 65 
GXF H27 H27 H  0 1 N N N N N N 14.361 16.530 43.845 -6.857 0.467  3.318  H27 GXF 66 
GXF H28 H28 H  0 1 N N N N N N 18.258 21.288 37.330 -8.036 -2.163 -3.918 H28 GXF 67 
GXF H29 H29 H  0 1 N N N N N N 17.559 19.923 36.768 -9.467 -1.321 -4.176 H29 GXF 68 
# 
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 
GXF C23 C22 DOUB Y N 1  
GXF C23 C12 SING Y N 2  
GXF C10 N5  SING N N 3  
GXF C10 C9  SING N N 4  
GXF C22 C21 SING Y N 5  
GXF N   C   SING N N 6  
GXF N5  C11 SING N N 7  
GXF N6  C11 SING N N 8  
GXF N6  C12 SING N N 9  
GXF C11 N7  DOUB N N 10 
GXF C9  C8  SING N N 11 
GXF C12 C13 DOUB Y N 12 
GXF C21 C14 DOUB Y N 13 
GXF C   C3  DOUB Y N 14 
GXF C   N1  SING Y N 15 
GXF N3  C3  SING Y N 16 
GXF N3  C4  DOUB Y N 17 
GXF C3  C2  SING Y N 18 
GXF C8  S   SING N N 19 
GXF N1  C1  DOUB Y N 20 
GXF C13 C14 SING Y N 21 
GXF C4  N4  SING Y N 22 
GXF C14 C15 SING N N 23 
GXF C2  N4  SING Y N 24 
GXF C2  N2  DOUB Y N 25 
GXF S   C7  SING N N 26 
GXF C1  N2  SING Y N 27 
GXF N4  C5  SING N N 28 
GXF C7  C6  SING N N 29 
GXF O   C5  SING N N 30 
GXF O   C6  SING N N 31 
GXF C15 C16 DOUB Y N 32 
GXF C15 C20 SING Y N 33 
GXF C16 C17 SING Y N 34 
GXF C5  C25 SING N N 35 
GXF C6  C24 SING N N 36 
GXF C20 C19 DOUB Y N 37 
GXF C25 C24 SING N N 38 
GXF C25 O2  SING N N 39 
GXF C24 O1  SING N N 40 
GXF C17 C18 DOUB Y N 41 
GXF C19 C18 SING Y N 42 
GXF C18 CL  SING N N 43 
GXF C7  H1  SING N N 44 
GXF C7  H2  SING N N 45 
GXF C8  H3  SING N N 46 
GXF C8  H4  SING N N 47 
GXF C9  H5  SING N N 48 
GXF C9  H6  SING N N 49 
GXF O1  H7  SING N N 50 
GXF C1  H8  SING N N 51 
GXF C5  H9  SING N N 52 
GXF C6  H10 SING N N 53 
GXF C4  H11 SING N N 54 
GXF C17 H12 SING N N 55 
GXF C16 H13 SING N N 56 
GXF C19 H14 SING N N 57 
GXF C20 H15 SING N N 58 
GXF C13 H16 SING N N 59 
GXF C21 H17 SING N N 60 
GXF C22 H18 SING N N 61 
GXF C23 H19 SING N N 62 
GXF N6  H20 SING N N 63 
GXF N7  H21 SING N N 64 
GXF N5  H22 SING N N 65 
GXF C10 H23 SING N N 66 
GXF C10 H24 SING N N 67 
GXF C24 H25 SING N N 68 
GXF C25 H26 SING N N 69 
GXF O2  H27 SING N N 70 
GXF N   H28 SING N N 71 
GXF N   H29 SING N N 72 
# 
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 
GXF SMILES           ACDLabs              12.01 "Clc1ccc(cc1)c1cc(ccc1)NC(=N)NCCCSCC1OC(n2cnc3c(N)ncnc32)C(O)C1O"                                                                                                                                                                                     
GXF InChI            InChI                1.06  "InChI=1S/C26H29ClN8O3S/c27-17-7-5-15(6-8-17)16-3-1-4-18(11-16)34-26(29)30-9-2-10-39-12-19-21(36)22(37)25(38-19)35-14-33-20-23(28)31-13-32-24(20)35/h1,3-8,11,13-14,19,21-22,25,36-37H,2,9-10,12H2,(H2,28,31,32)(H3,29,30,34)/t19-,21-,22-,25-/m1/s1" 
GXF InChIKey         InChI                1.06  CEYIEWVKCKYWPH-PTGPVQHPSA-N                                                                                                                                                                                                                           
GXF SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CSCCCNC(=N)Nc4cccc(c4)c5ccc(Cl)cc5)[C@@H](O)[C@H]3O"                                                                                                                                                                   
GXF SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CSCCCNC(=N)Nc4cccc(c4)c5ccc(Cl)cc5)[CH](O)[CH]3O"                                                                                                                                                                         
GXF SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(\NCCCSC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O)/Nc4cccc(c4)c5ccc(cc5)Cl"                                                                                                                                                             
GXF SMILES           "OpenEye OEToolkits" 2.0.7 "c1cc(cc(c1)NC(=N)NCCCSCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O)c5ccc(cc5)Cl"                                                                                                                                                                                   
# 
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 
GXF "SYSTEMATIC NAME" ACDLabs              12.01 "5'-S-{3-[N'-(4'-chloro[1,1'-biphenyl]-3-yl)carbamimidamido]propyl}-5'-thioadenosine"                                                              
GXF "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[3-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanyl]propyl]-3-[3-(4-chlorophenyl)phenyl]guanidine" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
GXF "Create component" 2023-05-01 RCSB 
GXF "Initial release"  2024-04-17 RCSB 
# 
