data_GWU # _chem_comp.id GWU _chem_comp.name "5'-{(3-aminopropyl)[2-(benzylcarbamamido)ethyl]amino}-5'-deoxyadenosine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H33 N9 O4" _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 2024-04-19 _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 499.566 _chem_comp.one_letter_code ? _chem_comp.three_letter_code GWU _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 8SIG _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 GWU N1 N1 N 0 1 Y N N N N N 8.395 18.410 -27.628 6.948 -3.316 0.887 N1 GWU 1 GWU C7 C1 C 0 1 N N N N N N 3.599 24.378 -26.268 0.535 2.067 -1.301 C7 GWU 2 GWU C8 C2 C 0 1 N N N N N N 3.063 25.993 -24.750 0.236 3.948 0.194 C8 GWU 3 GWU N2 N2 N 0 1 Y N N N N N 6.871 19.923 -28.707 6.265 -1.288 0.014 N2 GWU 4 GWU C9 C3 C 0 1 N N N N N N 2.123 27.084 -24.398 -0.119 4.292 1.642 C9 GWU 5 GWU O1 O1 O 0 1 N N N N N N 3.011 29.480 -29.466 -3.238 -1.434 0.313 O1 GWU 6 GWU C1 C4 C 0 1 Y N N N N N 7.956 19.150 -28.647 7.208 -2.158 0.307 C1 GWU 7 GWU C5 C5 C 0 1 N N R N N N 4.465 21.673 -28.022 3.637 0.446 -0.478 C5 GWU 8 GWU C6 C6 C 0 1 N N R N N N 3.911 23.905 -27.647 2.048 2.019 -1.081 C6 GWU 9 GWU N3 N3 N 0 1 Y N N N N N 5.615 19.417 -25.406 3.321 -2.776 1.087 N3 GWU 10 GWU C4 C7 C 0 1 Y N N N N N 4.776 20.273 -25.940 2.816 -1.669 0.626 C4 GWU 11 GWU C3 C8 C 0 1 Y N N N N N 6.522 19.172 -26.423 4.664 -2.765 0.913 C3 GWU 12 GWU O3 O2 O 0 1 N N N N N N 2.428 20.870 -28.924 4.834 0.334 -2.618 O3 GWU 13 GWU C2 C9 C 0 1 Y N N N N N 6.199 19.901 -27.555 4.992 -1.547 0.296 C2 GWU 14 GWU N4 N4 N 0 1 Y N N N N N 5.075 20.617 -27.231 3.807 -0.877 0.127 N4 GWU 15 GWU C13 C10 C 0 1 N N N N N N 4.147 29.009 -29.531 -3.944 -0.473 0.074 C13 GWU 16 GWU N8 N5 N 0 1 N N N N N N 5.165 29.664 -30.127 -5.278 -0.628 -0.040 N8 GWU 17 GWU C14 C11 C 0 1 N N N N N N 4.947 30.914 -30.832 -5.878 -1.954 0.123 C14 GWU 18 GWU C15 C12 C 0 1 Y N N N N N 4.886 32.141 -29.966 -7.371 -1.855 -0.051 C15 GWU 19 GWU C20 C13 C 0 1 Y N N N N N 4.285 33.303 -30.432 -8.180 -1.603 1.041 C20 GWU 20 GWU C19 C14 C 0 1 Y N N N N N 4.280 34.450 -29.665 -9.550 -1.513 0.881 C19 GWU 21 GWU C18 C15 C 0 1 Y N N N N N 4.892 34.469 -28.442 -10.111 -1.673 -0.372 C18 GWU 22 GWU C17 C16 C 0 1 Y N N N N N 5.478 33.318 -27.960 -9.302 -1.925 -1.465 C17 GWU 23 GWU C16 C17 C 0 1 Y N N N N N 5.457 32.159 -28.708 -7.932 -2.011 -1.305 C16 GWU 24 GWU N7 N6 N 0 1 N N N N N N 4.481 27.850 -28.936 -3.392 0.748 -0.077 N7 GWU 25 GWU C12 C18 C 0 1 N N N N N N 3.504 27.056 -28.202 -1.942 0.916 0.047 C12 GWU 26 GWU C11 C19 C 0 1 N N N N N N 4.040 26.662 -26.863 -1.580 2.387 -0.166 C11 GWU 27 GWU N5 N7 N 0 1 N N N N N N 3.150 25.715 -26.178 -0.122 2.550 -0.079 N5 GWU 28 GWU C10 C20 C 0 1 N N N N N N 2.299 27.381 -22.930 0.377 5.703 1.967 C10 GWU 29 GWU N6 N8 N 0 1 N N N N N N 1.962 28.688 -22.601 0.036 6.033 3.357 N6 GWU 30 GWU O O3 O 0 1 N N N N N N 4.914 22.887 -27.482 2.368 1.020 -0.098 O GWU 31 GWU C21 C21 C 0 1 N N S N N N 2.703 23.224 -28.288 2.756 1.617 -2.390 C21 GWU 32 GWU O2 O4 O 0 1 N N N N N N 2.614 23.489 -29.684 3.655 2.645 -2.809 O2 GWU 33 GWU C22 C22 C 0 1 N N R N N N 2.947 21.742 -27.965 3.536 0.332 -2.020 C22 GWU 34 GWU C C23 C 0 1 Y N N N N N 7.680 18.383 -26.487 5.706 -3.662 1.207 C GWU 35 GWU N N9 N 0 1 N N N N N N 8.066 17.555 -25.511 5.444 -4.878 1.814 N GWU 36 GWU H1 H1 H 0 1 N N N N N N 2.815 23.727 -25.854 0.309 2.743 -2.127 H1 GWU 37 GWU H2 H2 H 0 1 N N N N N N 4.512 24.284 -25.661 0.170 1.068 -1.539 H2 GWU 38 GWU H3 H3 H 0 1 N N N N N N 2.733 25.076 -24.240 -0.316 4.603 -0.481 H3 GWU 39 GWU H4 H4 H 0 1 N N N N N N 4.065 26.272 -24.392 1.306 4.086 0.039 H4 GWU 40 GWU H5 H5 H 0 1 N N N N N N 2.350 27.981 -24.992 -1.200 4.248 1.771 H5 GWU 41 GWU H6 H6 H 0 1 N N N N N N 1.089 26.766 -24.595 0.356 3.576 2.312 H6 GWU 42 GWU H7 H7 H 0 1 N N N N N N 8.559 19.119 -29.542 8.232 -1.916 0.065 H7 GWU 43 GWU H8 H8 H 0 1 N N N N N N 4.778 21.579 -29.072 4.457 1.107 -0.195 H8 GWU 44 GWU H9 H9 H 0 1 N N N N N N 4.267 24.733 -28.278 2.406 2.994 -0.749 H9 GWU 45 GWU H10 H10 H 0 1 N N N N N N 3.925 20.671 -25.408 1.766 -1.414 0.637 H10 GWU 46 GWU H11 H11 H 0 1 N N N N N N 2.610 19.973 -28.669 4.823 0.264 -3.583 H11 GWU 47 GWU H12 H12 H 0 1 N N N N N N 6.088 29.281 -30.082 -5.841 0.139 -0.231 H12 GWU 48 GWU H13 H13 H 0 1 N N N N N N 5.769 31.046 -31.550 -5.468 -2.633 -0.625 H13 GWU 49 GWU H14 H14 H 0 1 N N N N N N 3.994 30.835 -31.376 -5.653 -2.334 1.120 H14 GWU 50 GWU H15 H15 H 0 1 N N N N N N 3.817 33.309 -31.405 -7.741 -1.478 2.020 H15 GWU 51 GWU H16 H16 H 0 1 N N N N N N 3.789 35.339 -30.033 -10.181 -1.316 1.735 H16 GWU 52 GWU H17 H17 H 0 1 N N N N N N 4.916 35.378 -27.859 -11.182 -1.603 -0.497 H17 GWU 53 GWU H18 H18 H 0 1 N N N N N N 5.956 33.324 -26.992 -9.741 -2.051 -2.444 H18 GWU 54 GWU H19 H19 H 0 1 N N N N N N 5.892 31.256 -28.306 -7.300 -2.204 -2.159 H19 GWU 55 GWU H20 H20 H 0 1 N N N N N N 5.424 27.525 -28.999 -3.955 1.514 -0.268 H20 GWU 56 GWU H21 H21 H 0 1 N N N N N N 2.588 27.649 -28.064 -1.624 0.605 1.042 H21 GWU 57 GWU H22 H22 H 0 1 N N N N N N 3.270 26.149 -28.778 -1.440 0.306 -0.703 H22 GWU 58 GWU H23 H23 H 0 1 N N N N N N 5.025 26.191 -26.998 -1.923 2.707 -1.150 H23 GWU 59 GWU H24 H24 H 0 1 N N N N N N 4.146 27.564 -26.242 -2.059 2.995 0.601 H24 GWU 60 GWU H26 H26 H 0 1 N N N N N N 1.658 26.697 -22.354 1.458 5.747 1.838 H26 GWU 61 GWU H27 H27 H 0 1 N N N N N N 3.352 27.211 -22.661 -0.099 6.419 1.297 H27 GWU 62 GWU H28 H28 H 0 1 N N N N N N 2.096 28.831 -21.620 0.353 6.960 3.597 H28 GWU 63 GWU H29 H29 H 0 1 N N N N N N 2.543 29.321 -23.113 -0.955 5.936 3.519 H29 GWU 64 GWU H31 H31 H 0 1 N N N N N N 1.789 23.556 -27.774 2.024 1.408 -3.170 H31 GWU 65 GWU H32 H32 H 0 1 N N N N N N 2.463 24.417 -29.822 4.170 2.421 -3.596 H32 GWU 66 GWU H33 H33 H 0 1 N N N N N N 2.590 21.510 -26.951 2.978 -0.559 -2.309 H33 GWU 67 GWU H34 H34 H 0 1 N N N N N N 8.880 17.052 -25.802 6.171 -5.488 2.012 H34 GWU 68 GWU H35 H35 H 0 1 N N N N N N 8.277 18.084 -24.689 4.532 -5.119 2.043 H35 GWU 69 # 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 GWU C14 N8 SING N N 1 GWU C14 C15 SING N N 2 GWU C20 C15 DOUB Y N 3 GWU C20 C19 SING Y N 4 GWU N8 C13 SING N N 5 GWU C15 C16 SING Y N 6 GWU O2 C21 SING N N 7 GWU C19 C18 DOUB Y N 8 GWU C13 O1 DOUB N N 9 GWU C13 N7 SING N N 10 GWU N7 C12 SING N N 11 GWU O3 C22 SING N N 12 GWU C16 C17 DOUB Y N 13 GWU N2 C1 DOUB Y N 14 GWU N2 C2 SING Y N 15 GWU C1 N1 SING Y N 16 GWU C18 C17 SING Y N 17 GWU C21 C22 SING N N 18 GWU C21 C6 SING N N 19 GWU C12 C11 SING N N 20 GWU C5 C22 SING N N 21 GWU C5 O SING N N 22 GWU C5 N4 SING N N 23 GWU C6 O SING N N 24 GWU C6 C7 SING N N 25 GWU N1 C DOUB Y N 26 GWU C2 N4 SING Y N 27 GWU C2 C3 DOUB Y N 28 GWU N4 C4 SING Y N 29 GWU C11 N5 SING N N 30 GWU C C3 SING Y N 31 GWU C N SING N N 32 GWU C3 N3 SING Y N 33 GWU C7 N5 SING N N 34 GWU N5 C8 SING N N 35 GWU C4 N3 DOUB Y N 36 GWU C8 C9 SING N N 37 GWU C9 C10 SING N N 38 GWU C10 N6 SING N N 39 GWU C7 H1 SING N N 40 GWU C7 H2 SING N N 41 GWU C8 H3 SING N N 42 GWU C8 H4 SING N N 43 GWU C9 H5 SING N N 44 GWU C9 H6 SING N N 45 GWU C1 H7 SING N N 46 GWU C5 H8 SING N N 47 GWU C6 H9 SING N N 48 GWU C4 H10 SING N N 49 GWU O3 H11 SING N N 50 GWU N8 H12 SING N N 51 GWU C14 H13 SING N N 52 GWU C14 H14 SING N N 53 GWU C20 H15 SING N N 54 GWU C19 H16 SING N N 55 GWU C18 H17 SING N N 56 GWU C17 H18 SING N N 57 GWU C16 H19 SING N N 58 GWU N7 H20 SING N N 59 GWU C12 H21 SING N N 60 GWU C12 H22 SING N N 61 GWU C11 H23 SING N N 62 GWU C11 H24 SING N N 63 GWU C10 H26 SING N N 64 GWU C10 H27 SING N N 65 GWU N6 H28 SING N N 66 GWU N6 H29 SING N N 67 GWU C21 H31 SING N N 68 GWU O2 H32 SING N N 69 GWU C22 H33 SING N N 70 GWU N H34 SING N N 71 GWU N H35 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 GWU SMILES ACDLabs 12.01 "NCCCN(CCNC(=O)NCc1ccccc1)CC1OC(n2cnc3c(N)ncnc32)C(O)C1O" GWU InChI InChI 1.06 "InChI=1S/C23H33N9O4/c24-7-4-9-31(10-8-26-23(35)27-11-15-5-2-1-3-6-15)12-16-18(33)19(34)22(36-16)32-14-30-17-20(25)28-13-29-21(17)32/h1-3,5-6,13-14,16,18-19,22,33-34H,4,7-12,24H2,(H2,25,28,29)(H2,26,27,35)/t16-,18-,19-,22-/m1/s1" GWU InChIKey InChI 1.06 XDYSZBVLXUKRDP-WGQQHEPDSA-N GWU SMILES_CANONICAL CACTVS 3.385 "NCCCN(CCNC(=O)NCc1ccccc1)C[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34" GWU SMILES CACTVS 3.385 "NCCCN(CCNC(=O)NCc1ccccc1)C[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34" GWU SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CNC(=O)NCCN(CCCN)C[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O" GWU SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CNC(=O)NCCN(CCCN)CC2C(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 GWU "SYSTEMATIC NAME" ACDLabs 12.01 "5'-{(3-aminopropyl)[2-(benzylcarbamamido)ethyl]amino}-5'-deoxyadenosine" GWU "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[2-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azanylpropyl)amino]ethyl]-3-(phenylmethyl)urea" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site GWU "Create component" 2023-05-01 RCSB GWU "Initial release" 2024-04-24 RCSB #