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 #