data_0R5 # _chem_comp.id 0R5 _chem_comp.name ;2'-deoxy-5-[(4-ethynylphenyl)ethynyl]uridine 5'-(tetrahydrogen triphosphate) ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H19 N2 O14 P3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2012-04-26 _chem_comp.pdbx_modified_date 2013-03-22 _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 592.280 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 0R5 _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 4ELT _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 0R5 O2G O2G O 0 1 N N N 18.486 -13.774 -13.911 7.180 -4.204 -1.729 O2G 0R5 1 0R5 PG PG P 0 1 N N N 17.090 -13.487 -13.480 7.160 -3.438 -0.313 PG 0R5 2 0R5 O1G O1G O 0 1 N N N 17.233 -12.188 -12.714 6.859 -4.495 0.864 O1G 0R5 3 0R5 O3G O3G O 0 1 N N N 16.032 -13.504 -14.553 8.474 -2.799 -0.079 O3G 0R5 4 0R5 O3B O3B O 0 1 N N N 16.462 -14.560 -12.418 6.010 -2.311 -0.329 O3B 0R5 5 0R5 PB PB P 0 1 N N N 16.835 -16.091 -12.022 5.732 -0.985 0.540 PB 0R5 6 0R5 O1B O1B O 0 1 N N N 15.692 -16.590 -11.176 5.177 -1.401 1.993 O1B 0R5 7 0R5 O2B O2B O 0 1 N N N 17.124 -17.052 -13.141 6.991 -0.222 0.693 O2B 0R5 8 0R5 O3A O3A O 0 1 N N N 18.089 -15.819 -11.036 4.639 -0.071 -0.210 O3A 0R5 9 0R5 PA PA P 0 1 N N N 19.662 -16.146 -11.241 4.232 1.484 -0.123 PA 0R5 10 0R5 O1A O1A O 0 1 N N N 20.129 -16.170 -12.639 4.255 1.922 1.291 O1A 0R5 11 0R5 O2A O2A O 0 1 N N N 20.445 -15.192 -10.361 5.279 2.362 -0.974 O2A 0R5 12 0R5 "O5'" O5* O 0 1 N N N 19.752 -17.637 -10.675 2.751 1.686 -0.723 O5* 0R5 13 0R5 "C5'" C5* C 0 1 N N N 19.681 -18.816 -11.488 2.063 2.938 -0.692 C5* 0R5 14 0R5 "C4'" C4* C 0 1 N N R 18.949 -19.848 -10.633 0.687 2.779 -1.342 C4* 0R5 15 0R5 "C3'" C3* C 0 1 N N S 17.644 -19.257 -10.095 -0.026 4.147 -1.433 C3* 0R5 16 0R5 "O3'" O3* O 0 1 N N N 16.558 -19.265 -11.030 0.126 4.704 -2.740 O3* 0R5 17 0R5 "C2'" C2* C 0 1 N N N 17.370 -20.108 -8.861 -1.509 3.816 -1.154 C2* 0R5 18 0R5 "O4'" O4* O 0 1 N N N 19.681 -20.197 -9.442 -0.172 1.970 -0.510 O4* 0R5 19 0R5 "C1'" C1* C 0 1 N N R 18.772 -20.388 -8.340 -1.518 2.288 -0.928 C1* 0R5 20 0R5 N1 N1 N 0 1 N N N 19.043 -19.431 -7.238 -2.476 1.933 0.121 N1 0R5 21 0R5 C2 C2 C 0 1 N N N 18.792 -19.855 -5.910 -2.261 2.355 1.378 C2 0R5 22 0R5 O2 O2 O 0 1 N N N 18.375 -21.028 -5.702 -1.273 3.024 1.614 O2 0R5 23 0R5 N3 N3 N 0 1 N N N 19.009 -19.026 -4.869 -3.105 2.062 2.382 N3 0R5 24 0R5 C4 C4 C 0 1 N N N 19.451 -17.768 -5.059 -4.209 1.321 2.149 C4 0R5 25 0R5 O4 O4 O 0 1 N N N 19.656 -16.994 -4.096 -4.978 1.052 3.054 O4 0R5 26 0R5 C6 C6 C 0 1 N N N 19.468 -18.175 -7.480 -3.570 1.185 -0.200 C6 0R5 27 0R5 C5 C5 C 0 1 N N N 19.691 -17.288 -6.463 -4.465 0.847 0.780 C5 0R5 28 0R5 C5M C5M C 0 1 N N N 20.133 -16.085 -6.679 -5.624 0.063 0.478 C5M 0R5 29 0R5 C30 C30 C 0 1 N N N 20.539 -14.982 -6.877 -6.575 -0.580 0.230 C30 0R5 30 0R5 C31 C31 C 0 1 Y N N 20.931 -13.765 -7.085 -7.734 -1.364 -0.072 C31 0R5 31 0R5 C36 C36 C 0 1 Y N N 21.771 -13.491 -8.164 -7.963 -1.801 -1.381 C36 0R5 32 0R5 C35 C35 C 0 1 Y N N 22.237 -12.195 -8.408 -9.069 -2.549 -1.668 C35 0R5 33 0R5 C34 C34 C 0 1 Y N N 21.866 -11.170 -7.543 -9.973 -2.879 -0.655 C34 0R5 34 0R5 C37 C37 C 0 1 N N N 22.340 -9.994 -7.763 -11.132 -3.663 -0.957 C37 0R5 35 0R5 C38 C38 C 0 1 N N N 22.734 -8.779 -7.877 -12.083 -4.306 -1.204 C38 0R5 36 0R5 C33 C33 C 0 1 Y N N 21.051 -11.441 -6.440 -9.745 -2.443 0.654 C33 0R5 37 0R5 C32 C32 C 0 1 Y N N 20.581 -12.730 -6.211 -8.637 -1.699 0.944 C32 0R5 38 0R5 H1 H1 H 0 1 N N N 18.502 -13.933 -14.847 7.850 -4.899 -1.791 H1 0R5 39 0R5 H2 H2 H 0 1 N N N 16.605 -11.555 -13.043 6.012 -4.952 0.775 H2 0R5 40 0R5 H3 H3 H 0 1 N N N 15.380 -17.418 -11.521 4.352 -1.905 1.969 H3 0R5 41 0R5 H4 H4 H 0 1 N N N 21.118 -14.764 -10.877 5.317 2.129 -1.911 H4 0R5 42 0R5 H5 H5 H 0 1 N N N 19.121 -18.614 -12.413 1.941 3.260 0.342 H5 0R5 43 0R5 H6 H6 H 0 1 N N N 20.691 -19.171 -11.741 2.639 3.683 -1.239 H6 0R5 44 0R5 H7 H7 H 0 1 N N N 18.730 -20.741 -11.236 0.785 2.336 -2.333 H7 0R5 45 0R5 H8 H8 H 0 1 N N N 17.841 -18.225 -9.768 0.361 4.830 -0.677 H8 0R5 46 0R5 H9 H9 H 0 1 N N N 15.788 -18.884 -10.625 -0.302 5.564 -2.853 H9 0R5 47 0R5 H10 H10 H 0 1 N N N 16.773 -19.555 -8.121 -1.855 4.336 -0.261 H10 0R5 48 0R5 H11 H11 H 0 1 N N N 16.851 -21.040 -9.128 -2.127 4.078 -2.013 H11 0R5 49 0R5 H12 H12 H 0 1 N N N 18.826 -21.421 -7.965 -1.759 1.768 -1.855 H12 0R5 50 0R5 H13 H13 H 0 1 N N N 18.839 -19.351 -3.939 -2.920 2.384 3.277 H13 0R5 51 0R5 H14 H14 H 0 1 N N N 19.636 -17.862 -8.500 -3.727 0.858 -1.217 H14 0R5 52 0R5 H15 H15 H 0 1 N N N 22.067 -14.294 -8.823 -7.265 -1.546 -2.165 H15 0R5 53 0R5 H16 H16 H 0 1 N N N 22.875 -11.993 -9.255 -9.245 -2.887 -2.679 H16 0R5 54 0R5 H17 H17 H 0 1 N N N 23.060 -7.775 -7.971 -12.933 -4.881 -1.426 H17 0R5 55 0R5 H18 H18 H 0 1 N N N 20.785 -10.644 -5.761 -10.444 -2.698 1.436 H18 0R5 56 0R5 H19 H19 H 0 1 N N N 19.947 -12.932 -5.360 -8.460 -1.366 1.956 H19 0R5 57 # 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 0R5 O3G PG DOUB N N 1 0R5 O2G PG SING N N 2 0R5 PG O1G SING N N 3 0R5 PG O3B SING N N 4 0R5 O2B PB DOUB N N 5 0R5 O1A PA DOUB N N 6 0R5 O3B PB SING N N 7 0R5 PB O1B SING N N 8 0R5 PB O3A SING N N 9 0R5 "C5'" "O5'" SING N N 10 0R5 "C5'" "C4'" SING N N 11 0R5 PA O3A SING N N 12 0R5 PA "O5'" SING N N 13 0R5 PA O2A SING N N 14 0R5 "O3'" "C3'" SING N N 15 0R5 "C4'" "C3'" SING N N 16 0R5 "C4'" "O4'" SING N N 17 0R5 "C3'" "C2'" SING N N 18 0R5 "O4'" "C1'" SING N N 19 0R5 "C2'" "C1'" SING N N 20 0R5 C35 C36 DOUB Y N 21 0R5 C35 C34 SING Y N 22 0R5 "C1'" N1 SING N N 23 0R5 C36 C31 SING Y N 24 0R5 C38 C37 TRIP N N 25 0R5 C37 C34 SING N N 26 0R5 C34 C33 DOUB Y N 27 0R5 C6 N1 SING N N 28 0R5 C6 C5 DOUB N N 29 0R5 N1 C2 SING N N 30 0R5 C31 C30 SING N N 31 0R5 C31 C32 DOUB Y N 32 0R5 C30 C5M TRIP N N 33 0R5 C5M C5 SING N N 34 0R5 C5 C4 SING N N 35 0R5 C33 C32 SING Y N 36 0R5 C2 O2 DOUB N N 37 0R5 C2 N3 SING N N 38 0R5 C4 N3 SING N N 39 0R5 C4 O4 DOUB N N 40 0R5 O2G H1 SING N N 41 0R5 O1G H2 SING N N 42 0R5 O1B H3 SING N N 43 0R5 O2A H4 SING N N 44 0R5 "C5'" H5 SING N N 45 0R5 "C5'" H6 SING N N 46 0R5 "C4'" H7 SING N N 47 0R5 "C3'" H8 SING N N 48 0R5 "O3'" H9 SING N N 49 0R5 "C2'" H10 SING N N 50 0R5 "C2'" H11 SING N N 51 0R5 "C1'" H12 SING N N 52 0R5 N3 H13 SING N N 53 0R5 C6 H14 SING N N 54 0R5 C36 H15 SING N N 55 0R5 C35 H16 SING N N 56 0R5 C38 H17 SING N N 57 0R5 C33 H18 SING N N 58 0R5 C32 H19 SING N N 59 # 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 0R5 SMILES ACDLabs 12.01 "O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC3OC(N2C(=O)NC(=O)C(C#Cc1ccc(C#C)cc1)=C2)CC3O" 0R5 InChI InChI 1.03 "InChI=1S/C19H19N2O14P3/c1-2-12-3-5-13(6-4-12)7-8-14-10-21(19(24)20-18(14)23)17-9-15(22)16(33-17)11-32-37(28,29)35-38(30,31)34-36(25,26)27/h1,3-6,10,15-17,22H,9,11H2,(H,28,29)(H,30,31)(H,20,23,24)(H2,25,26,27)/t15-,16+,17+/m0/s1" 0R5 InChIKey InChI 1.03 NDHYKBWELLKQHS-GVDBMIGSSA-N 0R5 SMILES_CANONICAL CACTVS 3.370 "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)N2C=C(C#Cc3ccc(cc3)C#C)C(=O)NC2=O" 0R5 SMILES CACTVS 3.370 "O[CH]1C[CH](O[CH]1CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)N2C=C(C#Cc3ccc(cc3)C#C)C(=O)NC2=O" 0R5 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C#Cc1ccc(cc1)C#CC2=CN(C(=O)NC2=O)[C@H]3C[C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O" 0R5 SMILES "OpenEye OEToolkits" 1.7.6 "C#Cc1ccc(cc1)C#CC2=CN(C(=O)NC2=O)C3CC(C(O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)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 0R5 "SYSTEMATIC NAME" ACDLabs 12.01 ;2'-deoxy-5-[(4-ethynylphenyl)ethynyl]uridine 5'-(tetrahydrogen triphosphate) ; 0R5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[[(2R,3S,5R)-5-[5-[2-(4-ethynylphenyl)ethynyl]-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono 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 0R5 "Create component" 2012-04-26 RCSB 0R5 "Initial release" 2013-03-27 RCSB #