data_DVS
# 
_chem_comp.id                                    DVS 
_chem_comp.name                                  "5'-S-[3-(N'-benzylcarbamimidamido)propyl]-5'-thioadenosine" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H28 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                     2023-04-26 
_chem_comp.pdbx_modified_date                    2023-05-05 
_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                        472.564 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     DVS 
_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        8G2F 
_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.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 
DVS N1  N1  N 0 1 Y N N 27.172 1.098  -3.994 -8.738 2.457  0.404  N1  DVS 1  
DVS C7  C1  C 0 1 N N S 20.682 -0.773 -0.682 -3.872 -2.890 -0.218 C7  DVS 2  
DVS C8  C2  C 0 1 N N S 20.893 -1.903 -1.713 -2.759 -2.086 0.483  C8  DVS 3  
DVS N2  N2  N 0 1 Y N N 23.338 0.372  -3.007 -5.178 0.553  0.100  N2  DVS 4  
DVS C9  C3  C 0 1 N N N 19.662 -2.210 -2.545 -1.462 -2.182 -0.323 C9  DVS 5  
DVS O1  O1  O 0 1 N N N 21.011 -1.221 0.631  -4.354 -3.928 0.638  O1  DVS 6  
DVS C1  C4  C 0 1 Y N N 24.839 1.283  -4.340 -6.498 2.293  -0.287 C1  DVS 7  
DVS C5  C5  C 0 1 N N R 22.658 -0.409 -1.975 -4.645 -0.738 0.541  C5  DVS 8  
DVS C6  C6  C 0 1 N N R 21.605 0.359  -1.176 -4.985 -1.848 -0.486 C6  DVS 9  
DVS N3  N3  N 0 1 Y N N 23.599 1.636  -4.853 -5.277 2.530  -0.821 N3  DVS 10 
DVS C4  C7  C 0 1 Y N N 22.749 1.077  -4.025 -4.500 1.510  -0.595 C4  DVS 11 
DVS C3  C8  C 0 1 Y N N 26.880 0.381  -2.901 -8.645 1.258  0.951  C3  DVS 12 
DVS C2  C9  C 0 1 Y N N 24.694 0.511  -3.195 -6.450 1.022  0.311  C2  DVS 13 
DVS N4  N4  N 0 1 N N N 16.288 -3.725 -5.816 4.920  -0.480 -0.196 N4  DVS 14 
DVS O2  O2  O 0 1 N N N 22.186 1.034  -0.065 -6.277 -2.403 -0.228 O2  DVS 15 
DVS O   O3  O 0 1 N N N 21.962 -1.480 -2.596 -3.197 -0.719 0.549  O   DVS 16 
DVS N   N5  N 0 1 Y N N 25.679 0.027  -2.428 -7.536 0.549  0.912  N   DVS 17 
DVS C   C10 C 0 1 Y N N 26.156 1.568  -4.756 -7.704 3.011  -0.220 C   DVS 18 
DVS N7  N6  N 0 1 N N N 26.458 2.224  -5.880 -7.812 4.267  -0.790 N7  DVS 19 
DVS S   S1  S 0 1 N N N 19.056 -0.760 -3.441 -0.125 -1.358 0.584  S   DVS 20 
DVS C10 C11 C 0 1 N N N 17.678 -1.469 -4.392 1.305  -1.574 -0.511 C10 DVS 21 
DVS C11 C12 C 0 1 N N N 18.153 -2.134 -5.668 2.536  -0.922 0.122  C11 DVS 22 
DVS C12 C13 C 0 1 N N N 17.022 -2.670 -6.501 3.741  -1.104 -0.802 C12 DVS 23 
DVS C13 C14 C 0 1 N N N 14.960 -3.717 -5.714 6.130  -0.517 -0.848 C13 DVS 24 
DVS N6  N7  N 0 1 N N N 14.261 -4.775 -5.478 6.228  -1.107 -2.007 N6  DVS 25 
DVS N5  N8  N 0 1 N N N 14.302 -2.521 -5.825 7.236  0.068  -0.279 N5  DVS 26 
DVS C14 C15 C 0 1 N N N 12.854 -2.403 -5.795 8.525  0.029  -0.974 C14 DVS 27 
DVS C15 C16 C 0 1 Y N N 12.283 -2.135 -4.422 9.565  0.736  -0.144 C15 DVS 28 
DVS C20 C17 C 0 1 Y N N 12.983 -2.471 -3.271 9.774  2.093  -0.307 C20 DVS 29 
DVS C19 C18 C 0 1 Y N N 12.400 -2.322 -2.016 10.728 2.742  0.454  C19 DVS 30 
DVS C18 C19 C 0 1 Y N N 11.127 -1.822 -1.898 11.473 2.034  1.379  C18 DVS 31 
DVS C17 C20 C 0 1 Y N N 10.422 -1.469 -3.035 11.264 0.677  1.542  C17 DVS 32 
DVS C16 C21 C 0 1 Y N N 10.995 -1.625 -4.287 10.306 0.029  0.784  C16 DVS 33 
DVS H1  H1  H 0 1 N N N 19.637 -0.433 -0.728 -3.507 -3.309 -1.156 H1  DVS 34 
DVS H2  H2  H 0 1 N N N 21.194 -2.814 -1.175 -2.600 -2.474 1.489  H2  DVS 35 
DVS H3  H3  H 0 1 N N N 18.866 -2.571 -1.878 -1.206 -3.230 -0.475 H3  DVS 36 
DVS H4  H4  H 0 1 N N N 19.914 -2.995 -3.273 -1.598 -1.697 -1.289 H4  DVS 37 
DVS H5  H5  H 0 1 N N N 20.875 -0.514 1.251  -5.075 -4.448 0.258  H5  DVS 38 
DVS H6  H6  H 0 1 N N N 23.404 -0.807 -1.272 -5.033 -0.995 1.527  H6  DVS 39 
DVS H7  H7  H 0 1 N N N 21.049 1.045  -1.832 -4.923 -1.467 -1.505 H7  DVS 40 
DVS H8  H8  H 0 1 N N N 21.678 1.164  -4.135 -3.470 1.433  -0.912 H8  DVS 41 
DVS H9  H9  H 0 1 N N N 27.728 0.043  -2.324 -9.509 0.845  1.448  H9  DVS 42 
DVS H10 H10 H 0 1 N N N 16.799 -4.482 -5.408 4.847  -0.041 0.666  H10 DVS 43 
DVS H11 H11 H 0 1 N N N 21.510 1.501  0.411  -6.535 -3.102 -0.845 H11 DVS 44 
DVS H12 H12 H 0 1 N N N 27.452 2.266  -5.986 -7.050 4.662  -1.243 H12 DVS 45 
DVS H13 H13 H 0 1 N N N 26.060 1.745  -6.662 -8.650 4.754  -0.738 H13 DVS 46 
DVS H14 H14 H 0 1 N N N 16.974 -0.664 -4.651 1.492  -2.637 -0.659 H14 DVS 47 
DVS H15 H15 H 0 1 N N N 17.166 -2.218 -3.770 1.099  -1.104 -1.473 H15 DVS 48 
DVS H16 H16 H 0 1 N N N 18.820 -2.968 -5.403 2.349  0.141  0.270  H16 DVS 49 
DVS H17 H17 H 0 1 N N N 18.709 -1.395 -6.264 2.741  -1.392 1.084  H17 DVS 50 
DVS H18 H18 H 0 1 N N N 17.433 -3.075 -7.438 3.536  -0.634 -1.764 H18 DVS 51 
DVS H19 H19 H 0 1 N N N 16.329 -1.847 -6.730 3.929  -2.168 -0.950 H19 DVS 52 
DVS H20 H20 H 0 1 N N N 14.834 -5.589 -5.383 5.447  -1.520 -2.408 H20 DVS 53 
DVS H21 H21 H 0 1 N N N 14.845 -1.688 -5.932 7.163  0.507  0.583  H21 DVS 54 
DVS H22 H22 H 0 1 N N N 12.561 -1.575 -6.458 8.824  -1.008 -1.126 H22 DVS 55 
DVS H23 H23 H 0 1 N N N 12.423 -3.343 -6.170 8.432  0.526  -1.940 H23 DVS 56 
DVS H24 H24 H 0 1 N N N 13.990 -2.852 -3.350 9.192  2.646  -1.030 H24 DVS 57 
DVS H25 H25 H 0 1 N N N 12.952 -2.601 -1.131 10.892 3.802  0.326  H25 DVS 58 
DVS H26 H26 H 0 1 N N N 10.678 -1.705 -0.923 12.219 2.540  1.973  H26 DVS 59 
DVS H27 H27 H 0 1 N N N 9.422  -1.071 -2.946 11.846 0.124  2.264  H27 DVS 60 
DVS H28 H28 H 0 1 N N N 10.436 -1.348 -5.168 10.140 -1.030 0.914  H28 DVS 61 
# 
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 
DVS C12 N4  SING N N 1  
DVS C12 C11 SING N N 2  
DVS N7  C   SING N N 3  
DVS N5  C14 SING N N 4  
DVS N5  C13 SING N N 5  
DVS N4  C13 SING N N 6  
DVS C14 C15 SING N N 7  
DVS C13 N6  DOUB N N 8  
DVS C11 C10 SING N N 9  
DVS N3  C1  SING Y N 10 
DVS N3  C4  DOUB Y N 11 
DVS C   C1  DOUB Y N 12 
DVS C   N1  SING Y N 13 
DVS C15 C16 DOUB Y N 14 
DVS C15 C20 SING Y N 15 
DVS C10 S   SING N N 16 
DVS C1  C2  SING Y N 17 
DVS C16 C17 SING Y N 18 
DVS C4  N2  SING Y N 19 
DVS N1  C3  DOUB Y N 20 
DVS S   C9  SING N N 21 
DVS C20 C19 DOUB Y N 22 
DVS C2  N2  SING Y N 23 
DVS C2  N   DOUB Y N 24 
DVS C17 C18 DOUB Y N 25 
DVS N2  C5  SING N N 26 
DVS C3  N   SING Y N 27 
DVS O   C5  SING N N 28 
DVS O   C8  SING N N 29 
DVS C9  C8  SING N N 30 
DVS C19 C18 SING Y N 31 
DVS C5  C6  SING N N 32 
DVS C8  C7  SING N N 33 
DVS C6  C7  SING N N 34 
DVS C6  O2  SING N N 35 
DVS C7  O1  SING N N 36 
DVS C7  H1  SING N N 37 
DVS C8  H2  SING N N 38 
DVS C9  H3  SING N N 39 
DVS C9  H4  SING N N 40 
DVS O1  H5  SING N N 41 
DVS C5  H6  SING N N 42 
DVS C6  H7  SING N N 43 
DVS C4  H8  SING N N 44 
DVS C3  H9  SING N N 45 
DVS N4  H10 SING N N 46 
DVS O2  H11 SING N N 47 
DVS N7  H12 SING N N 48 
DVS N7  H13 SING N N 49 
DVS C10 H14 SING N N 50 
DVS C10 H15 SING N N 51 
DVS C11 H16 SING N N 52 
DVS C11 H17 SING N N 53 
DVS C12 H18 SING N N 54 
DVS C12 H19 SING N N 55 
DVS N6  H20 SING N N 56 
DVS N5  H21 SING N N 57 
DVS C14 H22 SING N N 58 
DVS C14 H23 SING N N 59 
DVS C20 H24 SING N N 60 
DVS C19 H25 SING N N 61 
DVS C18 H26 SING N N 62 
DVS C17 H27 SING N N 63 
DVS C16 H28 SING N N 64 
# 
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 
DVS SMILES           ACDLabs              12.01 "N=C(NCc1ccccc1)NCCCSCC1OC(n2cnc3c(N)ncnc32)C(O)C1O"                                                                                                                                                                       
DVS InChI            InChI                1.06  "InChI=1S/C21H28N8O3S/c22-18-15-19(27-11-26-18)29(12-28-15)20-17(31)16(30)14(32-20)10-33-8-4-7-24-21(23)25-9-13-5-2-1-3-6-13/h1-3,5-6,11-12,14,16-17,20,30-31H,4,7-10H2,(H2,22,26,27)(H3,23,24,25)/t14-,16-,17-,20-/m1/s1" 
DVS InChIKey         InChI                1.06  LTPOXWXTHQVJKG-WVSUBDOOSA-N                                                                                                                                                                                                
DVS SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CSCCCNC(=N)NCc4ccccc4)[C@@H](O)[C@H]3O"                                                                                                                                                     
DVS SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CSCCCNC(=N)NCc4ccccc4)[CH](O)[CH]3O"                                                                                                                                                           
DVS SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/NCCCSC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O)\NCc4ccccc4"                                                                                                                                               
DVS SMILES           "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CNC(=N)NCCCSCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O"                                                                                                                                                                     
# 
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 
DVS "SYSTEMATIC NAME" ACDLabs              12.01 "5'-S-[3-(N'-benzylcarbamimidamido)propyl]-5'-thioadenosine"                                                                           
DVS "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-(phenylmethyl)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 
DVS "Create component" 2023-04-26 RCSB 
DVS "Initial release"  2023-05-10 RCSB 
# 
