data_UYP # _chem_comp.id UYP _chem_comp.name "1-[[(2~{R},3~{S},4~{R},5~{R})-5-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-methyl-amino]prop-1-ynyl]-6-azanyl-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-3-phenyl-urea" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C31 H35 N13 O7" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-09-07 _chem_comp.pdbx_modified_date 2025-03-14 _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 701.692 _chem_comp.one_letter_code ? _chem_comp.three_letter_code UYP _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 8QGC _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm ? # 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 UYP C4 C1 C 0 1 Y N N N N N 20.868 11.604 12.949 -5.742 -2.669 0.049 C4 UYP 1 UYP C5 C2 C 0 1 Y N N N N N 20.535 12.722 12.195 -5.755 -3.113 -1.286 C5 UYP 2 UYP C6 C3 C 0 1 Y N N N N N 21.536 13.561 11.719 -6.751 -4.030 -1.670 C6 UYP 3 UYP C8 C4 C 0 1 Y N N N N N 18.752 11.682 12.740 -4.093 -1.727 -1.082 C8 UYP 4 UYP N1 N1 N 0 1 Y N N N N N 22.799 13.255 12.014 -7.629 -4.431 -0.757 N1 UYP 5 UYP N3 N2 N 0 1 Y N N N N N 22.147 11.359 13.205 -6.663 -3.127 0.890 N3 UYP 6 UYP C2 C5 C 0 1 Y N N N N N 23.061 12.167 12.718 -7.576 -3.985 0.485 C2 UYP 7 UYP CAA C6 C 0 1 N N N N N N 13.134 9.036 12.448 0.726 -1.231 -1.493 CAA UYP 8 UYP CAC C7 C 0 1 N N N N N N 14.836 10.694 13.085 -0.835 0.550 -1.995 CAC UYP 9 UYP CAD C8 C 0 1 N N N N N N 16.230 11.072 12.944 -2.011 -0.272 -1.666 CAD UYP 10 UYP CAE C9 C 0 1 N N N N N N 17.374 11.360 12.848 -2.949 -0.927 -1.403 CAE UYP 11 UYP CAP C10 C 0 1 N N R N N N 19.564 9.709 14.123 -4.265 -1.086 1.362 CAP UYP 12 UYP CAR C11 C 0 1 N N R N N N 18.377 7.702 14.592 -3.007 0.705 2.117 CAR UYP 13 UYP CAS C12 C 0 1 N N N N N N 16.946 8.174 14.417 -1.910 1.625 1.577 CAS UYP 14 UYP CAU C13 C 0 1 N N N N N N 16.447 6.363 12.715 -1.733 3.830 0.557 CAU UYP 15 UYP CAX C14 C 0 1 Y N N N N N 15.729 4.933 10.913 -1.470 6.018 -0.341 CAX UYP 16 UYP CAY C15 C 0 1 Y N N N N N 14.947 4.854 9.773 -1.894 6.841 -1.376 CAY UYP 17 UYP CAZ C16 C 0 1 Y N N N N N 14.915 3.695 9.010 -1.089 7.877 -1.807 CAZ UYP 18 UYP CBA C17 C 0 1 Y N N N N N 15.752 2.630 9.318 0.139 8.094 -1.209 CBA UYP 19 UYP CBB C18 C 0 1 Y N N N N N 16.599 2.727 10.413 0.565 7.276 -0.179 CBB UYP 20 UYP CBC C19 C 0 1 Y N N N N N 16.608 3.878 11.182 -0.237 6.239 0.257 CBC UYP 21 UYP CBD C20 C 0 1 N N S N N N 18.824 8.418 15.878 -2.374 -0.548 2.753 CBD UYP 22 UYP CBF C21 C 0 1 N N R N N N 18.752 9.868 15.404 -2.987 -1.727 1.961 CBF UYP 23 UYP CBH C22 C 0 1 N N N N N N 14.439 9.930 10.636 1.420 1.080 -1.289 CBH UYP 24 UYP CBI C23 C 0 1 N N R N N N 15.773 9.832 9.890 2.479 0.761 -0.231 CBI UYP 25 UYP CBK C24 C 0 1 N N R N N N 17.293 8.468 8.848 4.365 -0.476 0.194 CBK UYP 26 UYP CBL C25 C 0 1 N N R N N N 17.010 9.759 8.067 4.896 0.964 -0.004 CBL UYP 27 UYP CBN C26 C 0 1 N N S N N N 15.568 10.064 8.399 3.625 1.795 -0.289 CBN UYP 28 UYP CBQ C27 C 0 1 Y N N N N N 16.172 6.717 7.408 5.264 -1.953 -1.644 CBQ UYP 29 UYP CBS C28 C 0 1 Y N N N N N 17.758 5.240 7.569 6.958 -2.893 -0.669 CBS UYP 30 UYP CBT C29 C 0 1 Y N N N N N 18.102 6.343 8.306 6.366 -2.025 0.264 CBT UYP 31 UYP CBV C30 C 0 1 Y N N N N N 20.094 5.376 8.940 7.957 -2.630 1.808 CBV UYP 32 UYP CBX C31 C 0 1 Y N N N N N 18.658 4.184 7.550 8.091 -3.622 -0.271 CBX UYP 33 UYP N6 N3 N 0 1 N N N N N N 21.267 14.644 10.990 -6.815 -4.503 -2.969 N6 UYP 34 UYP N7 N4 N 0 1 Y N N N N N 19.222 12.738 12.084 -4.730 -2.507 -1.924 N7 UYP 35 UYP N9 N5 N 0 1 Y N N N N N 19.748 10.969 13.266 -4.684 -1.802 0.154 N9 UYP 36 UYP NAB N6 N 0 1 N N N N N N 14.430 9.652 12.102 0.302 0.135 -1.162 NAB UYP 37 UYP NAT N7 N 0 1 N N N N N N 16.293 7.618 13.188 -2.513 2.865 1.082 NAT UYP 38 UYP NAW N8 N 0 1 N N N N N N 15.757 6.102 11.596 -2.287 4.971 0.101 NAW UYP 39 UYP NBP N9 N 0 1 Y N N N N N 17.107 7.198 8.226 5.298 -1.451 -0.377 NBP UYP 40 UYP NBR N10 N 0 1 Y N N N N N 16.567 5.494 7.026 6.238 -2.799 -1.813 NBR UYP 41 UYP NBU N11 N 0 1 Y N N N N N 19.260 6.396 8.977 6.895 -1.926 1.480 NBU UYP 42 UYP NBW N12 N 0 1 Y N N N N N 19.808 4.287 8.241 8.548 -3.458 0.966 NBW UYP 43 UYP NBY N13 N 0 1 N N N N N N 18.396 3.080 6.858 8.716 -4.493 -1.147 NBY UYP 44 UYP OAQ O1 O 0 1 N N N N N N 19.031 8.461 13.519 -3.849 0.259 1.041 OAQ UYP 45 UYP OAV O2 O 0 1 N N N N N N 16.908 5.463 13.422 -0.529 3.671 0.493 OAV UYP 46 UYP OBE O3 O 0 1 N N N N N N 20.105 8.016 16.391 -2.724 -0.638 4.136 OBE UYP 47 UYP OBG O4 O 0 1 N N N N N N 19.514 10.691 16.294 -3.320 -2.809 2.832 OBG UYP 48 UYP OBJ O5 O 0 1 N N N N N N 16.097 8.450 9.720 3.108 -0.507 -0.516 OBJ UYP 49 UYP OBM O6 O 0 1 N N N N N N 18.006 10.772 8.161 5.540 1.427 1.184 OBM UYP 50 UYP OBO O7 O 0 1 N N N N N N 15.417 11.471 8.201 3.446 2.797 0.713 OBO UYP 51 UYP H1 H1 H 0 1 N N N N N N 24.097 11.926 12.905 -8.310 -4.337 1.195 H1 UYP 52 UYP H2 H2 H 0 1 N N N N N N 13.105 8.822 13.527 1.522 -1.539 -0.815 H2 UYP 53 UYP H3 H3 H 0 1 N N N N N N 12.319 9.728 12.190 -0.121 -1.910 -1.391 H3 UYP 54 UYP H4 H4 H 0 1 N N N N N N 13.012 8.099 11.885 1.093 -1.259 -2.520 H4 UYP 55 UYP H5 H5 H 0 1 N N N N N N 14.211 11.586 12.933 -0.582 0.417 -3.047 H5 UYP 56 UYP H6 H6 H 0 1 N N N N N N 14.677 10.303 14.101 -1.060 1.600 -1.806 H6 UYP 57 UYP H7 H7 H 0 1 N N N N N N 20.578 9.453 14.464 -5.069 -1.074 2.098 H7 UYP 58 UYP H8 H8 H 0 1 N N N N N N 18.524 6.612 14.585 -3.603 1.236 2.859 H8 UYP 59 UYP H9 H9 H 0 1 N N N N N N 16.945 9.272 14.349 -1.204 1.856 2.374 H9 UYP 60 UYP H10 H10 H 0 1 N N N N N N 16.363 7.861 15.296 -1.386 1.125 0.762 H10 UYP 61 UYP H11 H11 H 0 1 N N N N N N 14.354 5.706 9.474 -2.853 6.672 -1.844 H11 UYP 62 UYP H12 H12 H 0 1 N N N N N N 14.236 3.621 8.173 -1.418 8.517 -2.612 H12 UYP 63 UYP H13 H13 H 0 1 N N N N N N 15.744 1.736 8.712 0.768 8.905 -1.548 H13 UYP 64 UYP H14 H14 H 0 1 N N N N N N 17.251 1.904 10.665 1.524 7.448 0.286 H14 UYP 65 UYP H15 H15 H 0 1 N N N N N N 17.305 3.963 12.003 0.094 5.603 1.065 H15 UYP 66 UYP H16 H16 H 0 1 N N N N N N 18.052 8.264 16.646 -1.290 -0.529 2.636 H16 UYP 67 UYP H17 H17 H 0 1 N N N N N N 17.723 10.213 15.224 -2.312 -2.059 1.172 H17 UYP 68 UYP H18 H18 H 0 1 N N N N N N 14.061 10.953 10.496 1.055 2.096 -1.143 H18 UYP 69 UYP H19 H19 H 0 1 N N N N N N 13.748 9.216 10.164 1.860 0.990 -2.282 H19 UYP 70 UYP H20 H20 H 0 1 N N N N N N 16.569 10.452 10.329 2.030 0.747 0.762 H20 UYP 71 UYP H21 H21 H 0 1 N N N N N N 18.229 8.539 9.421 4.207 -0.679 1.254 H21 UYP 72 UYP H22 H22 H 0 1 N N N N N N 16.997 9.448 7.012 5.580 1.008 -0.851 H22 UYP 73 UYP H23 H23 H 0 1 N N N N N N 14.824 9.410 7.921 3.680 2.249 -1.279 H23 UYP 74 UYP H24 H24 H 0 1 N N N N N N 15.264 7.219 7.108 4.533 -1.691 -2.395 H24 UYP 75 UYP H25 H25 H 0 1 N N N N N N 21.024 5.428 9.487 8.362 -2.526 2.804 H25 UYP 76 UYP H26 H26 H 0 1 N N N N N N 22.121 15.106 10.751 -7.507 -5.134 -3.222 H26 UYP 77 UYP H27 H27 H 0 1 N N N N N N 20.790 14.373 10.154 -6.168 -4.202 -3.627 H27 UYP 78 UYP H29 H29 H 0 1 N N N N N N 15.691 8.229 12.674 -3.473 2.991 1.133 H29 UYP 79 UYP H30 H30 H 0 1 N N N N N N 15.205 6.849 11.227 -3.252 5.067 0.081 H30 UYP 80 UYP H31 H31 H 0 1 N N N N N N 19.153 2.435 6.960 8.372 -4.605 -2.047 H31 UYP 81 UYP H32 H32 H 0 1 N N N N N N 17.554 2.663 7.201 9.497 -4.991 -0.860 H32 UYP 82 UYP H33 H33 H 0 1 N N N N N N 20.298 8.507 17.181 -2.352 -1.409 4.586 H33 UYP 83 UYP H34 H34 H 0 1 N N N N N N 19.034 10.810 17.105 -2.554 -3.243 3.232 H34 UYP 84 UYP H35 H35 H 0 1 N N N N N N 18.850 10.410 7.918 5.839 2.346 1.137 H35 UYP 85 UYP H36 H36 H 0 1 N N N N N N 14.522 11.724 8.396 4.168 3.439 0.761 H36 UYP 86 # 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 UYP NBY CBX SING N N 1 UYP NBR CBQ DOUB Y N 2 UYP NBR CBS SING Y N 3 UYP CBQ NBP SING Y N 4 UYP CBX CBS DOUB Y N 5 UYP CBX NBW SING Y N 6 UYP CBS CBT SING Y N 7 UYP CBL OBM SING N N 8 UYP CBL CBN SING N N 9 UYP CBL CBK SING N N 10 UYP OBO CBN SING N N 11 UYP NBP CBT SING Y N 12 UYP NBP CBK SING N N 13 UYP NBW CBV DOUB Y N 14 UYP CBT NBU DOUB Y N 15 UYP CBN CBI SING N N 16 UYP CBK OBJ SING N N 17 UYP CBV NBU SING Y N 18 UYP CAZ CBA DOUB Y N 19 UYP CAZ CAY SING Y N 20 UYP CBA CBB SING Y N 21 UYP OBJ CBI SING N N 22 UYP CAY CAX DOUB Y N 23 UYP CBI CBH SING N N 24 UYP CBB CBC DOUB Y N 25 UYP CBH NAB SING N N 26 UYP CAX CBC SING Y N 27 UYP CAX NAW SING N N 28 UYP N6 C6 SING N N 29 UYP NAW CAU SING N N 30 UYP C6 N1 DOUB Y N 31 UYP C6 C5 SING Y N 32 UYP N1 C2 SING Y N 33 UYP N7 C5 SING Y N 34 UYP N7 C8 DOUB Y N 35 UYP NAB CAA SING N N 36 UYP NAB CAC SING N N 37 UYP C5 C4 DOUB Y N 38 UYP CAU NAT SING N N 39 UYP CAU OAV DOUB N N 40 UYP C2 N3 DOUB Y N 41 UYP C8 CAE SING N N 42 UYP C8 N9 SING Y N 43 UYP CAE CAD TRIP N N 44 UYP CAD CAC SING N N 45 UYP C4 N3 SING Y N 46 UYP C4 N9 SING Y N 47 UYP NAT CAS SING N N 48 UYP N9 CAP SING N N 49 UYP OAQ CAP SING N N 50 UYP OAQ CAR SING N N 51 UYP CAP CBF SING N N 52 UYP CAS CAR SING N N 53 UYP CAR CBD SING N N 54 UYP CBF CBD SING N N 55 UYP CBF OBG SING N N 56 UYP CBD OBE SING N N 57 UYP C2 H1 SING N N 58 UYP CAA H2 SING N N 59 UYP CAA H3 SING N N 60 UYP CAA H4 SING N N 61 UYP CAC H5 SING N N 62 UYP CAC H6 SING N N 63 UYP CAP H7 SING N N 64 UYP CAR H8 SING N N 65 UYP CAS H9 SING N N 66 UYP CAS H10 SING N N 67 UYP CAY H11 SING N N 68 UYP CAZ H12 SING N N 69 UYP CBA H13 SING N N 70 UYP CBB H14 SING N N 71 UYP CBC H15 SING N N 72 UYP CBD H16 SING N N 73 UYP CBF H17 SING N N 74 UYP CBH H18 SING N N 75 UYP CBH H19 SING N N 76 UYP CBI H20 SING N N 77 UYP CBK H21 SING N N 78 UYP CBL H22 SING N N 79 UYP CBN H23 SING N N 80 UYP CBQ H24 SING N N 81 UYP CBV H25 SING N N 82 UYP N6 H26 SING N N 83 UYP N6 H27 SING N N 84 UYP NAT H29 SING N N 85 UYP NAW H30 SING N N 86 UYP NBY H31 SING N N 87 UYP NBY H32 SING N N 88 UYP OBE H33 SING N N 89 UYP OBG H34 SING N N 90 UYP OBM H35 SING N N 91 UYP OBO H36 SING N N 92 # 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 UYP InChI InChI 1.06 "InChI=1S/C31H35N13O7/c1-42(11-17-22(46)23(47)29(51-17)43-14-39-19-25(32)35-12-37-27(19)43)9-5-8-18-41-20-26(33)36-13-38-28(20)44(18)30-24(48)21(45)16(50-30)10-34-31(49)40-15-6-3-2-4-7-15/h2-4,6-7,12-14,16-17,21-24,29-30,45-48H,9-11H2,1H3,(H2,32,35,37)(H2,33,36,38)(H2,34,40,49)/t16-,17-,21-,22-,23-,24-,29-,30-/m1/s1" UYP InChIKey InChI 1.06 FBNSVAQFHOUOTK-OZZDRAHTSA-N UYP SMILES_CANONICAL CACTVS 3.385 "CN(CC#Cc1nc2c(N)ncnc2n1[C@@H]3O[C@H](CNC(=O)Nc4ccccc4)[C@@H](O)[C@H]3O)C[C@H]5O[C@H]([C@H](O)[C@@H]5O)n6cnc7c(N)ncnc67" UYP SMILES CACTVS 3.385 "CN(CC#Cc1nc2c(N)ncnc2n1[CH]3O[CH](CNC(=O)Nc4ccccc4)[CH](O)[CH]3O)C[CH]5O[CH]([CH](O)[CH]5O)n6cnc7c(N)ncnc67" UYP SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN(CC#Cc1nc2c(ncnc2n1[C@H]3[C@@H]([C@@H]([C@H](O3)CNC(=O)Nc4ccccc4)O)O)N)C[C@@H]5[C@H]([C@H]([C@@H](O5)n6cnc7c6ncnc7N)O)O" UYP SMILES "OpenEye OEToolkits" 2.0.7 "CN(CC#Cc1nc2c(ncnc2n1C3C(C(C(O3)CNC(=O)Nc4ccccc4)O)O)N)CC5C(C(C(O5)n6cnc7c6ncnc7N)O)O" # _pdbx_chem_comp_identifier.comp_id UYP _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "1-[[(2~{R},3~{S},4~{R},5~{R})-5-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-methyl-amino]prop-1-ynyl]-6-azanyl-purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-3-phenyl-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 UYP "Create component" 2023-09-07 PDBE UYP "Initial release" 2025-03-19 RCSB #