data_YWI # _chem_comp.id YWI _chem_comp.name "5'-O-[(R)-(3-{[(1M)-3'-bromo[1,1'-biphenyl]-3-carbonyl]amino}propoxy)(hydroxy)phosphoryl]-2'-deoxyguanosine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C26 H28 Br N6 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-03-01 _chem_comp.pdbx_modified_date 2023-06-02 _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 663.414 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YWI _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 8GB1 _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 YWI C4 C1 C 0 1 Y N N -4.329 5.719 17.892 9.251 1.563 0.241 C4 YWI 1 YWI C14 C2 C 0 1 Y N N -11.481 8.751 12.198 -5.462 0.735 -0.843 C14 YWI 2 YWI C5 C3 C 0 1 Y N N -3.267 5.012 17.357 9.460 2.070 1.529 C5 YWI 3 YWI C6 C4 C 0 1 N N N -2.568 5.559 16.240 10.422 3.092 1.706 C6 YWI 4 YWI C11 C5 C 0 1 N N N -12.775 8.163 16.098 -0.944 -1.082 -0.482 C11 YWI 5 YWI C8 C6 C 0 1 Y N N -4.004 3.825 18.989 7.929 0.544 1.680 C8 YWI 6 YWI C10 C7 C 0 1 N N N -11.446 7.827 16.757 -0.022 -2.145 0.119 C10 YWI 7 YWI C12 C8 C 0 1 N N N -13.250 7.226 14.983 -2.374 -1.308 0.014 C12 YWI 8 YWI C13 C9 C 0 1 N N N -12.509 7.766 12.682 -4.571 -0.292 -0.263 C13 YWI 9 YWI N1 N1 N 0 1 N N N -3.104 6.787 15.865 11.097 3.533 0.622 N1 YWI 10 YWI N2 N2 N 0 1 N N N -4.544 8.587 15.949 11.550 3.467 -1.691 N2 YWI 11 YWI N3 N3 N 0 1 N N N -4.828 6.902 17.505 9.962 2.046 -0.785 N3 YWI 12 YWI "C1'" C10 C 0 1 N N R -5.928 5.296 19.896 7.727 -0.210 -0.721 "C1'" YWI 13 YWI C15 C11 C 0 1 Y N N -10.511 9.107 13.135 -4.944 1.708 -1.701 C15 YWI 14 YWI C16 C12 C 0 1 Y N N -9.543 10.037 12.822 -5.776 2.667 -2.243 C16 YWI 15 YWI C17 C13 C 0 1 Y N N -9.531 10.629 11.573 -7.123 2.671 -1.941 C17 YWI 16 YWI C18 C14 C 0 1 Y N N -10.458 10.271 10.594 -7.653 1.705 -1.086 C18 YWI 17 YWI C19 C15 C 0 1 Y N N -10.425 10.932 9.260 -9.103 1.708 -0.768 C19 YWI 18 YWI C2 C16 C 0 1 N N N -4.170 7.408 16.467 10.849 2.999 -0.608 C2 YWI 19 YWI "C2'" C17 C 0 1 N N N -6.139 6.749 20.286 8.622 -1.441 -0.964 "C2'" YWI 20 YWI C20 C18 C 0 1 Y N N -9.751 12.140 9.088 -9.936 2.683 -1.314 C20 YWI 21 YWI C21 C19 C 0 1 Y N N -9.683 12.749 7.847 -11.283 2.681 -1.015 C21 YWI 22 YWI C22 C20 C 0 1 Y N N -10.235 12.133 6.739 -11.808 1.715 -0.176 C22 YWI 23 YWI C23 C21 C 0 1 Y N N -10.850 10.909 6.898 -10.985 0.744 0.369 C23 YWI 24 YWI C24 C22 C 0 1 Y N N -10.944 10.297 8.133 -9.636 0.734 0.072 C24 YWI 25 YWI C25 C23 C 0 1 Y N N -11.446 9.350 10.939 -6.823 0.732 -0.540 C25 YWI 26 YWI "C3'" C24 C 0 1 N N S -7.377 7.169 19.496 7.675 -2.646 -0.748 "C3'" YWI 27 YWI "C4'" C25 C 0 1 N N R -8.146 5.856 19.329 6.279 -2.003 -0.947 "C4'" YWI 28 YWI "C5'" C26 C 0 1 N N N -9.137 5.843 18.185 5.204 -2.811 -0.218 "C5'" YWI 29 YWI N5 N4 N 0 1 N N N -12.267 7.298 13.912 -3.256 -0.290 -0.561 N5 YWI 30 YWI N7 N5 N 0 1 Y N N -3.074 3.830 18.046 8.622 1.408 2.363 N7 YWI 31 YWI N9 N6 N 0 1 Y N N -4.806 4.963 18.964 8.283 0.604 0.363 N9 YWI 32 YWI O1B O1 O 0 1 N N N -8.696 8.736 17.546 2.324 -4.357 -0.485 O1B YWI 33 YWI O1G O2 O 0 1 N N N -13.622 7.696 12.152 -5.023 -1.138 0.483 O1G YWI 34 YWI O2 O3 O 0 1 N N N -8.532 6.300 16.976 3.916 -2.266 -0.512 O2 YWI 35 YWI "O3'" O4 O 0 1 N N N -8.095 8.159 20.229 7.912 -3.662 -1.724 "O3'" YWI 36 YWI O3A O5 O 0 1 N N N -10.358 7.836 15.899 1.314 -1.934 -0.345 O3A YWI 37 YWI O3B O6 O 0 1 N N N -7.979 7.931 15.219 2.639 -2.919 1.565 O3B YWI 38 YWI "O4'" O7 O 0 1 N N N -7.118 4.853 19.219 6.424 -0.694 -0.355 "O4'" YWI 39 YWI O6 O8 O 0 1 N N N -1.606 5.079 15.621 10.636 3.564 2.810 O6 YWI 40 YWI PB P1 P 0 1 N N N -8.833 7.774 16.421 2.550 -2.870 0.088 PB YWI 41 YWI BR1 BR1 BR 0 0 N N N -11.586 10.038 5.378 -11.710 -0.572 1.516 BR1 YWI 42 YWI HOG2 H1 H 0 0 N N N -12.688 9.172 15.670 -0.605 -0.092 -0.176 HOG2 YWI 43 YWI "HO2'" H2 H 0 0 N N N -13.545 8.163 16.883 -0.921 -1.153 -1.569 "HO2'" YWI 44 YWI H8 H3 H 0 1 N N N -4.127 3.023 19.702 7.184 -0.120 2.093 H8 YWI 45 YWI HOB2 H4 H 0 0 N N N -11.526 6.823 17.199 -0.045 -2.074 1.206 HOB2 YWI 46 YWI HOA2 H5 H 0 0 N N N -11.262 8.564 17.553 -0.360 -3.135 -0.188 HOA2 YWI 47 YWI H17 H6 H 0 1 N N N -14.234 7.549 14.613 -2.712 -2.298 -0.293 H17 YWI 48 YWI HOG3 H7 H 0 0 N N N -13.320 6.195 15.361 -2.397 -1.237 1.101 HOG3 YWI 49 YWI HN1 H8 H 0 1 N N N -2.677 7.257 15.092 11.762 4.233 0.719 HN1 YWI 50 YWI HN22 H9 H 0 0 N N N -5.317 9.084 16.344 12.211 4.168 -1.575 HN22 YWI 51 YWI HN21 H10 H 0 0 N N N -4.050 8.969 15.168 11.384 3.097 -2.572 HN21 YWI 52 YWI "H1'" H11 H 0 1 N N N -5.798 4.710 20.818 7.659 0.384 -1.633 "H1'" YWI 53 YWI H19 H12 H 0 1 N N N -10.518 8.650 14.114 -3.891 1.710 -1.940 H19 YWI 54 YWI H20 H13 H 0 1 N N N -8.794 10.303 13.553 -5.371 3.418 -2.905 H20 YWI 55 YWI H21 H14 H 0 1 N N N -8.790 11.383 11.351 -7.769 3.424 -2.368 H21 YWI 56 YWI "H2'" H15 H 0 1 N N N -5.269 7.360 20.003 9.008 -1.437 -1.983 "H2'" YWI 57 YWI H6 H16 H 0 1 N N N -6.316 6.842 21.368 9.442 -1.464 -0.246 H6 YWI 58 YWI H22 H17 H 0 1 N N N -9.274 12.608 9.937 -9.528 3.438 -1.969 H22 YWI 59 YWI H23 H18 H 0 1 N N N -9.197 13.708 7.744 -11.930 3.436 -1.438 H23 YWI 60 YWI H24 H19 H 0 1 N N N -10.185 12.602 5.767 -12.862 1.720 0.058 H24 YWI 61 YWI H25 H20 H 0 1 N N N -11.418 9.331 8.225 -8.995 -0.024 0.498 H25 YWI 62 YWI H26 H21 H 0 1 N N N -12.203 9.094 10.213 -7.229 -0.018 0.122 H26 YWI 63 YWI "H3'" H22 H 0 1 N N N -7.075 7.548 18.509 7.779 -3.047 0.261 "H3'" YWI 64 YWI "H4'" H23 H 0 1 N N N -8.707 5.682 20.259 6.042 -1.920 -2.007 "H4'" YWI 65 YWI "H5''" H24 H 0 0 N N N -9.983 6.501 18.435 5.243 -3.849 -0.549 "H5''" YWI 66 YWI "H5'" H25 H 0 1 N N N -9.502 4.816 18.038 5.381 -2.765 0.857 "H5'" YWI 67 YWI H18 H26 H 0 1 N N N -11.342 6.974 14.110 -2.895 0.384 -1.157 H18 YWI 68 YWI H1 H27 H 0 1 N N N -8.028 9.378 17.335 2.256 -4.401 -1.449 H1 YWI 69 YWI "HO3'" H28 H 0 0 N N N -7.568 8.946 20.298 8.805 -4.032 -1.698 "HO3'" YWI 70 # 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 YWI BR1 C23 SING N N 1 YWI C22 C23 DOUB Y N 2 YWI C22 C21 SING Y N 3 YWI C23 C24 SING Y N 4 YWI C21 C20 DOUB Y N 5 YWI C24 C19 DOUB Y N 6 YWI C20 C19 SING Y N 7 YWI C19 C18 SING N N 8 YWI C18 C25 DOUB Y N 9 YWI C18 C17 SING Y N 10 YWI C25 C14 SING Y N 11 YWI C17 C16 DOUB Y N 12 YWI O1G C13 DOUB N N 13 YWI C14 C13 SING N N 14 YWI C14 C15 DOUB Y N 15 YWI C13 N5 SING N N 16 YWI C16 C15 SING Y N 17 YWI N5 C12 SING N N 18 YWI C12 C11 SING N N 19 YWI O3B PB DOUB N N 20 YWI O6 C6 DOUB N N 21 YWI N1 C6 SING N N 22 YWI N1 C2 SING N N 23 YWI O3A PB SING N N 24 YWI O3A C10 SING N N 25 YWI N2 C2 SING N N 26 YWI C11 C10 SING N N 27 YWI C6 C5 SING N N 28 YWI PB O2 SING N N 29 YWI PB O1B SING N N 30 YWI C2 N3 DOUB N N 31 YWI O2 "C5'" SING N N 32 YWI C5 C4 DOUB Y N 33 YWI C5 N7 SING Y N 34 YWI N3 C4 SING N N 35 YWI C4 N9 SING Y N 36 YWI N7 C8 DOUB Y N 37 YWI "C5'" "C4'" SING N N 38 YWI N9 C8 SING Y N 39 YWI N9 "C1'" SING N N 40 YWI "O4'" "C4'" SING N N 41 YWI "O4'" "C1'" SING N N 42 YWI "C4'" "C3'" SING N N 43 YWI "C3'" "O3'" SING N N 44 YWI "C3'" "C2'" SING N N 45 YWI "C1'" "C2'" SING N N 46 YWI C11 HOG2 SING N N 47 YWI C11 "HO2'" SING N N 48 YWI C8 H8 SING N N 49 YWI C10 HOB2 SING N N 50 YWI C10 HOA2 SING N N 51 YWI C12 H17 SING N N 52 YWI C12 HOG3 SING N N 53 YWI N1 HN1 SING N N 54 YWI N2 HN22 SING N N 55 YWI N2 HN21 SING N N 56 YWI "C1'" "H1'" SING N N 57 YWI C15 H19 SING N N 58 YWI C16 H20 SING N N 59 YWI C17 H21 SING N N 60 YWI "C2'" "H2'" SING N N 61 YWI "C2'" H6 SING N N 62 YWI C20 H22 SING N N 63 YWI C21 H23 SING N N 64 YWI C22 H24 SING N N 65 YWI C24 H25 SING N N 66 YWI C25 H26 SING N N 67 YWI "C3'" "H3'" SING N N 68 YWI "C4'" "H4'" SING N N 69 YWI "C5'" "H5''" SING N N 70 YWI "C5'" "H5'" SING N N 71 YWI N5 H18 SING N N 72 YWI O1B H1 SING N N 73 YWI "O3'" "HO3'" SING N N 74 # 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 YWI SMILES ACDLabs 12.01 "Brc1cccc(c1)c1cccc(c1)C(=O)NCCCOP(=O)(O)OCC1OC(CC1O)n1cnc2c1N=C(N)NC2=O" YWI InChI InChI 1.06 "InChI=1S/C26H28BrN6O8P/c27-18-7-2-5-16(11-18)15-4-1-6-17(10-15)24(35)29-8-3-9-39-42(37,38)40-13-20-19(34)12-21(41-20)33-14-30-22-23(33)31-26(28)32-25(22)36/h1-2,4-7,10-11,14,19-21,34H,3,8-9,12-13H2,(H,29,35)(H,37,38)(H3,28,31,32,36)/t19-,20+,21+/m0/s1" YWI InChIKey InChI 1.06 YVRCNNGDRZIWPL-PWRODBHTSA-N YWI SMILES_CANONICAL CACTVS 3.385 "NC1=Nc2n(cnc2C(=O)N1)[C@H]3C[C@H](O)[C@@H](CO[P](O)(=O)OCCCNC(=O)c4cccc(c4)c5cccc(Br)c5)O3" YWI SMILES CACTVS 3.385 "NC1=Nc2n(cnc2C(=O)N1)[CH]3C[CH](O)[CH](CO[P](O)(=O)OCCCNC(=O)c4cccc(c4)c5cccc(Br)c5)O3" YWI SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(cc(c1)C(=O)NCCCOP(=O)(O)OC[C@@H]2[C@H](C[C@@H](O2)n3cnc4c3N=C(NC4=O)N)O)c5cccc(c5)Br" YWI SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(cc(c1)C(=O)NCCCOP(=O)(O)OCC2C(CC(O2)n3cnc4c3N=C(NC4=O)N)O)c5cccc(c5)Br" # 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 YWI "SYSTEMATIC NAME" ACDLabs 12.01 "5'-O-[(R)-(3-{[(1M)-3'-bromo[1,1'-biphenyl]-3-carbonyl]amino}propoxy)(hydroxy)phosphoryl]-2'-deoxyguanosine" YWI "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{S},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-3-oxidanyl-oxolan-2-yl]methyl 3-[[3-(3-bromophenyl)phenyl]carbonylamino]propyl hydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YWI "Create component" 2023-03-01 RCSB YWI "Initial release" 2023-06-07 RCSB #