data_I0B # _chem_comp.id I0B _chem_comp.name "5'-([2-(benzylcarbamamido)ethyl]{3-[N'-(3-bromophenyl)carbamimidamido]propyl}amino)-5'-deoxyadenosine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C30 H38 Br N11 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 2024-02-16 _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 696.598 _chem_comp.one_letter_code ? _chem_comp.three_letter_code I0B _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 8G2I _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 I0B N1 N1 N 0 1 Y N N N N N 6.935 19.904 -29.544 2.606 6.280 2.060 N1 I0B 1 I0B C7 C1 C 0 1 N N N N N N 2.348 26.001 -28.338 -2.123 0.293 -2.026 C7 I0B 2 I0B C8 C2 C 0 1 N N N N N N 2.322 28.260 -29.136 -3.290 -1.015 -0.355 C8 I0B 3 I0B N2 N2 N 0 1 Y N N N N N 5.412 21.392 -30.677 0.541 5.516 1.357 N2 I0B 4 I0B C9 C3 C 0 1 N N N N N N 1.939 28.416 -30.559 -4.550 -1.250 -1.191 C9 I0B 5 I0B O1 O1 O 0 1 N N N N N N 1.267 30.722 -31.812 -7.073 -1.710 -2.025 O1 I0B 6 I0B C1 C4 C 0 1 Y N N N N N 6.540 20.682 -30.558 1.302 6.431 1.919 C1 I0B 7 I0B C5 C5 C 0 1 N N R N N N 2.852 23.006 -30.041 -0.831 3.016 -0.064 C5 I0B 8 I0B C6 C6 C 0 1 N N R N N N 2.496 25.268 -29.656 -2.246 1.492 -1.083 C6 I0B 9 I0B N3 N3 N 0 1 Y N N N N N 3.877 20.571 -27.556 2.721 2.960 0.492 N3 I0B 10 I0B C4 C7 C 0 1 Y N N N N N 3.022 21.392 -28.121 1.619 2.424 0.055 C4 I0B 11 I0B C3 C8 C 0 1 Y N N N N N 4.920 20.501 -28.467 2.451 4.174 1.028 C3 I0B 12 I0B O3 O2 O 0 1 N N N N N N 0.745 22.379 -30.985 -1.556 5.020 -1.281 O3 I0B 13 I0B C2 C9 C 0 1 Y N N N N N 4.648 21.279 -29.585 1.067 4.384 0.901 C2 I0B 14 I0B N4 N4 N 0 1 Y N N N N N 3.432 21.880 -29.335 0.570 3.264 0.284 N4 I0B 15 I0B BR BR1 BR 0 0 N N N N N N -3.067 35.377 -26.000 8.106 -3.818 1.632 BR I0B 16 I0B C24 C10 C 0 1 Y N N N N N -2.644 33.897 -24.909 7.852 -2.701 0.127 C24 I0B 17 I0B C23 C11 C 0 1 Y N N N N N -1.605 33.118 -25.320 6.577 -2.465 -0.350 C23 I0B 18 I0B C25 C12 C 0 1 Y N N N N N -3.485 33.530 -23.856 8.943 -2.116 -0.492 C25 I0B 19 I0B C26 C13 C 0 1 Y N N N N N -3.306 32.284 -23.256 8.761 -1.299 -1.592 C26 I0B 20 I0B C27 C14 C 0 1 Y N N N N N -2.304 31.443 -23.713 7.489 -1.064 -2.077 C27 I0B 21 I0B C22 C15 C 0 1 Y N N N N N -1.444 31.881 -24.738 6.391 -1.645 -1.455 C22 I0B 22 I0B N9 N5 N 0 1 N N N N N N -0.262 31.352 -25.233 5.102 -1.404 -1.941 N9 I0B 23 I0B C21 C16 C 0 1 N N N N N N -0.107 30.138 -24.850 4.032 -1.386 -1.075 C21 I0B 24 I0B N10 N6 N 0 1 N N N N N N -1.227 29.569 -24.319 4.232 -1.483 0.209 N10 I0B 25 I0B N8 N7 N 0 1 N N N N N N 1.014 29.601 -25.143 2.753 -1.266 -1.565 N8 I0B 26 I0B C20 C17 C 0 1 N N N N N N 1.434 28.262 -24.805 1.615 -1.246 -0.643 C20 I0B 27 I0B C19 C18 C 0 1 N N N N N N 1.941 27.659 -26.042 0.316 -1.105 -1.439 C19 I0B 28 I0B C18 C19 C 0 1 N N N N N N 0.955 27.632 -27.212 -0.873 -1.084 -0.476 C18 I0B 29 I0B N5 N8 N 0 1 N N N N N N 1.548 27.200 -28.488 -2.120 -0.948 -1.241 N5 I0B 30 I0B O O3 O 0 1 N N N N N N 3.367 24.153 -29.422 -1.059 1.607 -0.280 O I0B 31 I0B C28 C20 C 0 1 N N S N N N 1.205 24.683 -30.241 -2.372 2.792 -1.902 C28 I0B 32 I0B O2 O4 O 0 1 N N N N N N 1.174 25.014 -31.617 -3.606 3.451 -1.608 O2 I0B 33 I0B C29 C21 C 0 1 N N R N N N 1.330 23.182 -29.965 -1.173 3.652 -1.435 C29 I0B 34 I0B C C22 C 0 1 Y N N N N N 6.138 19.783 -28.467 3.221 5.181 1.635 C I0B 35 I0B N N9 N 0 1 N N N N N N 6.560 19.005 -27.454 4.589 5.031 1.787 N I0B 36 I0B N6 N10 N 0 1 N N N N N N 2.901 29.233 -31.297 -5.697 -1.443 -0.302 N6 I0B 37 I0B C10 C23 C 0 1 N N N N N N 2.458 30.346 -31.911 -6.921 -1.668 -0.820 C10 I0B 38 I0B N7 N11 N 0 1 N N N N N N 3.398 31.016 -32.603 -7.977 -1.846 -0.001 N7 I0B 39 I0B C11 C24 C 0 1 N N N N N N 3.072 32.207 -33.390 -9.307 -2.091 -0.564 C11 I0B 40 I0B C12 C25 C 0 1 Y N N N N N 3.143 33.512 -32.637 -10.304 -2.255 0.554 C12 I0B 41 I0B C17 C26 C 0 1 Y N N N N N 3.840 33.595 -31.438 -10.971 -1.151 1.053 C17 I0B 42 I0B C16 C27 C 0 1 Y N N N N N 3.959 34.799 -30.781 -11.885 -1.302 2.079 C16 I0B 43 I0B C15 C28 C 0 1 Y N N N N N 3.384 35.948 -31.309 -12.132 -2.555 2.606 C15 I0B 44 I0B C14 C29 C 0 1 Y N N N N N 2.709 35.876 -32.504 -11.465 -3.659 2.108 C14 I0B 45 I0B C13 C30 C 0 1 Y N N N N N 2.564 34.660 -33.152 -10.555 -3.509 1.078 C13 I0B 46 I0B H1 H1 H 0 1 N N N N N N 1.862 25.335 -27.610 -2.968 0.285 -2.715 H1 I0B 47 I0B H2 H2 H 0 1 N N N N N N 3.346 26.280 -27.969 -1.194 0.369 -2.590 H2 I0B 48 I0B H3 H3 H 0 1 N N N N N N 3.391 28.009 -29.079 -3.386 -0.076 0.191 H3 I0B 49 I0B H4 H4 H 0 1 N N N N N N 2.140 29.209 -28.610 -3.165 -1.835 0.352 H4 I0B 50 I0B H5 H5 H 0 1 N N N N N N 0.951 28.897 -30.611 -4.728 -0.385 -1.831 H5 I0B 51 I0B H6 H6 H 0 1 N N N N N N 1.887 27.421 -31.024 -4.415 -2.138 -1.809 H6 I0B 52 I0B H7 H7 H 0 1 N N N N N N 7.223 20.746 -31.392 0.842 7.340 2.278 H7 I0B 53 I0B H8 H8 H 0 1 N N N N N N 3.149 22.974 -31.100 -1.494 3.397 0.712 H8 I0B 54 I0B H9 H9 H 0 1 N N N N N N 2.943 25.948 -30.396 -3.118 1.370 -0.441 H9 I0B 55 I0B H10 H10 H 0 1 N N N N N N 2.078 21.659 -27.669 1.546 1.457 -0.420 H10 I0B 56 I0B H11 H11 H 0 1 N N N N N N 0.850 21.461 -30.765 -1.780 5.462 -2.112 H11 I0B 57 I0B H12 H12 H 0 1 N N N N N N -0.924 33.463 -26.084 5.725 -2.918 0.136 H12 I0B 58 I0B H13 H13 H 0 1 N N N N N N -4.260 34.199 -23.513 9.938 -2.298 -0.115 H13 I0B 59 I0B H14 H14 H 0 1 N N N N N N -3.944 31.977 -22.441 9.614 -0.844 -2.073 H14 I0B 60 I0B H15 H15 H 0 1 N N N N N N -2.184 30.458 -23.286 7.348 -0.426 -2.937 H15 I0B 61 I0B H16 H16 H 0 1 N N N N N N 0.384 31.851 -25.812 4.962 -1.250 -2.888 H16 I0B 62 I0B H17 H17 H 0 1 N N N N N N -1.107 28.590 -24.152 3.478 -1.470 0.820 H17 I0B 63 I0B H18 H18 H 0 1 N N N N N N 1.663 30.162 -25.656 2.604 -1.194 -2.520 H18 I0B 64 I0B H19 H19 H 0 1 N N N N N N 0.582 27.682 -24.421 1.592 -2.175 -0.073 H19 I0B 65 I0B H20 H20 H 0 1 N N N N N N 2.228 28.294 -24.045 1.715 -0.403 0.041 H20 I0B 66 I0B H21 H21 H 0 1 N N N N N N 2.232 26.622 -25.819 0.338 -0.175 -2.008 H21 I0B 67 I0B H22 H22 H 0 1 N N N N N N 2.827 28.228 -26.358 0.215 -1.947 -2.123 H22 I0B 68 I0B H23 H23 H 0 1 N N N N N N 0.549 28.646 -27.345 -0.895 -2.013 0.093 H23 I0B 69 I0B H24 H24 H 0 1 N N N N N N 0.138 26.940 -26.959 -0.772 -0.242 0.208 H24 I0B 70 I0B H26 H26 H 0 1 N N N N N N 0.334 25.091 -29.707 -2.297 2.579 -2.969 H26 I0B 71 I0B H27 H27 H 0 1 N N N N N N 1.096 25.956 -31.715 -3.712 4.303 -2.052 H27 I0B 72 I0B H28 H28 H 0 1 N N N N N N 0.955 22.933 -28.962 -0.336 3.560 -2.127 H28 I0B 73 I0B H29 H29 H 0 1 N N N N N N 7.454 18.618 -27.680 5.109 5.733 2.208 H29 I0B 74 I0B H30 H30 H 0 1 N N N N N N 6.635 19.554 -26.621 5.026 4.224 1.473 H30 I0B 75 I0B H31 H31 H 0 1 N N N N N N 3.865 28.971 -31.345 -5.577 -1.410 0.660 H31 I0B 76 I0B H32 H32 H 0 1 N N N N N N 4.344 30.692 -32.579 -7.856 -1.813 0.961 H32 I0B 77 I0B H33 H33 H 0 1 N N N N N N 2.048 32.091 -33.775 -9.598 -1.246 -1.189 H33 I0B 78 I0B H34 H34 H 0 1 N N N N N N 3.777 32.261 -34.233 -9.285 -2.999 -1.167 H34 I0B 79 I0B H35 H35 H 0 1 N N N N N N 4.292 32.708 -31.018 -10.778 -0.172 0.641 H35 I0B 80 I0B H36 H36 H 0 1 N N N N N N 4.503 34.850 -29.849 -12.406 -0.440 2.468 H36 I0B 81 I0B H37 H37 H 0 1 N N N N N N 3.467 36.889 -30.785 -12.846 -2.673 3.408 H37 I0B 82 I0B H38 H38 H 0 1 N N N N N N 2.290 36.771 -32.940 -11.657 -4.638 2.520 H38 I0B 83 I0B H39 H39 H 0 1 N N N N N N 1.994 34.607 -34.068 -10.037 -4.372 0.686 H39 I0B 84 # 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 I0B C11 C12 SING N N 1 I0B C11 N7 SING N N 2 I0B C13 C12 DOUB Y N 3 I0B C13 C14 SING Y N 4 I0B C12 C17 SING Y N 5 I0B N7 C10 SING N N 6 I0B C14 C15 DOUB Y N 7 I0B C10 O1 DOUB N N 8 I0B C10 N6 SING N N 9 I0B O2 C28 SING N N 10 I0B C17 C16 DOUB Y N 11 I0B C15 C16 SING Y N 12 I0B N6 C9 SING N N 13 I0B O3 C29 SING N N 14 I0B N2 C1 DOUB Y N 15 I0B N2 C2 SING Y N 16 I0B C9 C8 SING N N 17 I0B C1 N1 SING Y N 18 I0B C28 C29 SING N N 19 I0B C28 C6 SING N N 20 I0B C5 C29 SING N N 21 I0B C5 O SING N N 22 I0B C5 N4 SING N N 23 I0B C6 O SING N N 24 I0B C6 C7 SING N N 25 I0B C2 N4 SING Y N 26 I0B C2 C3 DOUB Y N 27 I0B N1 C DOUB Y N 28 I0B N4 C4 SING Y N 29 I0B C8 N5 SING N N 30 I0B N5 C7 SING N N 31 I0B N5 C18 SING N N 32 I0B C C3 SING Y N 33 I0B C N SING N N 34 I0B C3 N3 SING Y N 35 I0B C4 N3 DOUB Y N 36 I0B C18 C19 SING N N 37 I0B C19 C20 SING N N 38 I0B BR C24 SING N N 39 I0B C23 C24 DOUB Y N 40 I0B C23 C22 SING Y N 41 I0B N9 C21 SING N N 42 I0B N9 C22 SING N N 43 I0B N8 C21 SING N N 44 I0B N8 C20 SING N N 45 I0B C24 C25 SING Y N 46 I0B C21 N10 DOUB N N 47 I0B C22 C27 DOUB Y N 48 I0B C25 C26 DOUB Y N 49 I0B C27 C26 SING Y N 50 I0B C7 H1 SING N N 51 I0B C7 H2 SING N N 52 I0B C8 H3 SING N N 53 I0B C8 H4 SING N N 54 I0B C9 H5 SING N N 55 I0B C9 H6 SING N N 56 I0B C1 H7 SING N N 57 I0B C5 H8 SING N N 58 I0B C6 H9 SING N N 59 I0B C4 H10 SING N N 60 I0B O3 H11 SING N N 61 I0B C23 H12 SING N N 62 I0B C25 H13 SING N N 63 I0B C26 H14 SING N N 64 I0B C27 H15 SING N N 65 I0B N9 H16 SING N N 66 I0B N10 H17 SING N N 67 I0B N8 H18 SING N N 68 I0B C20 H19 SING N N 69 I0B C20 H20 SING N N 70 I0B C19 H21 SING N N 71 I0B C19 H22 SING N N 72 I0B C18 H23 SING N N 73 I0B C18 H24 SING N N 74 I0B C28 H26 SING N N 75 I0B O2 H27 SING N N 76 I0B C29 H28 SING N N 77 I0B N H29 SING N N 78 I0B N H30 SING N N 79 I0B N6 H31 SING N N 80 I0B N7 H32 SING N N 81 I0B C11 H33 SING N N 82 I0B C11 H34 SING N N 83 I0B C17 H35 SING N N 84 I0B C16 H36 SING N N 85 I0B C15 H37 SING N N 86 I0B C14 H38 SING N N 87 I0B C13 H39 SING N N 88 # 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 I0B SMILES ACDLabs 12.01 "Brc1cccc(c1)NC(=N)NCCCN(CCNC(=O)NCc1ccccc1)CC1OC(n2cnc3c(N)ncnc32)C(O)C1O" I0B InChI InChI 1.06 "InChI=1S/C30H38BrN11O4/c31-20-8-4-9-21(14-20)40-29(33)34-10-5-12-41(13-11-35-30(45)36-15-19-6-2-1-3-7-19)16-22-24(43)25(44)28(46-22)42-18-39-23-26(32)37-17-38-27(23)42/h1-4,6-9,14,17-18,22,24-25,28,43-44H,5,10-13,15-16H2,(H2,32,37,38)(H3,33,34,40)(H2,35,36,45)/t22-,24-,25-,28-/m1/s1" I0B InChIKey InChI 1.06 GYMQWYWYFKTHMW-ZYWWQZICSA-N I0B SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CN(CCCNC(=N)Nc4cccc(Br)c4)CCNC(=O)NCc5ccccc5)[C@@H](O)[C@H]3O" I0B SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CN(CCCNC(=N)Nc4cccc(Br)c4)CCNC(=O)NCc5ccccc5)[CH](O)[CH]3O" I0B SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/NCCCN(CCNC(=O)NCc1ccccc1)C[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O)\Nc5cccc(c5)Br" I0B SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CNC(=O)NCCN(CCCNC(=N)Nc2cccc(c2)Br)CC3C(C(C(O3)n4cnc5c4ncnc5N)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 I0B "SYSTEMATIC NAME" ACDLabs 12.01 "5'-([2-(benzylcarbamamido)ethyl]{3-[N'-(3-bromophenyl)carbamimidamido]propyl}amino)-5'-deoxyadenosine" I0B "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-[[~{N}-(3-bromophenyl)carbamimidoyl]amino]propyl]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 I0B "Create component" 2023-05-01 RCSB I0B "Initial release" 2024-02-21 RCSB #