data_2L8 # _chem_comp.id 2L8 _chem_comp.name "[(2R,3S,5R)-3-[(1-{[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl}-1H-1,2,3-triazol-4-yl)methoxy]-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate " _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C23 H30 N7 O12 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2011-01-26 _chem_comp.pdbx_modified_date 2011-12-23 _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 627.498 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 2L8 _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 2L8I _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 2L8 N1 N1 N 0 1 N N N 137.879 3.213 -1.552 7.667 0.747 -0.098 N1 2L8 1 2L8 P1 P1 P 0 1 N N N 142.636 -2.684 -8.339 -5.001 -4.587 0.170 P1 2L8 2 2L8 N11 N11 N 0 1 N N N 138.710 -0.212 -5.142 -5.955 2.022 -0.422 N11 2L8 3 2L8 C2 C2 C 0 1 N N N 136.947 2.744 -0.653 7.905 -0.551 0.161 C2 2L8 4 2L8 O2 O2 O 0 1 N N N 135.988 3.398 -0.283 7.141 -1.397 -0.262 O2 2L8 5 2L8 C21 C21 C 0 1 N N N 137.678 0.279 -4.374 -6.278 1.926 0.880 C21 2L8 6 2L8 O21 O21 O 0 1 N N N 137.246 1.414 -4.484 -5.686 1.135 1.588 O21 2L8 7 2L8 N3 N3 N 0 1 N N N 137.180 1.473 -0.200 8.977 -0.927 0.883 N3 2L8 8 2L8 N31 N31 N 0 1 N N N 137.169 -0.610 -3.465 -7.247 2.695 1.411 N31 2L8 9 2L8 C4 C4 C 0 1 N N N 138.226 0.644 -0.541 9.834 -0.002 1.360 C4 2L8 10 2L8 O4 O4 O 0 1 N N N 138.301 -0.470 -0.049 10.805 -0.341 2.012 O4 2L8 11 2L8 C41 C41 C 0 1 N N N 137.576 -1.910 -3.252 -7.912 3.579 0.640 C41 2L8 12 2L8 O41 O41 O 0 1 N N N 137.021 -2.591 -2.397 -8.789 4.275 1.119 O41 2L8 13 2L8 C5 C5 C 0 1 N N N 139.169 1.197 -1.488 9.595 1.368 1.094 C5 2L8 14 2L8 C51 C51 C 0 1 N N N 138.663 -2.361 -4.092 -7.583 3.689 -0.733 C51 2L8 15 2L8 C6 C6 C 0 1 N N N 138.944 2.433 -1.957 8.512 1.717 0.368 C6 2L8 16 2L8 C61 C61 C 0 1 N N N 139.175 -1.501 -4.984 -6.607 2.905 -1.239 C61 2L8 17 2L8 C7 C7 C 0 1 N N N 140.356 0.381 -1.892 10.537 2.423 1.616 C7 2L8 18 2L8 C71 C71 C 0 1 N N N 139.166 -3.762 -3.935 -8.312 4.668 -1.617 C71 2L8 19 2L8 "C1'" "C1'" C 0 1 N N R 137.720 4.588 -2.068 6.494 1.125 -0.891 "C1'" 2L8 20 2L8 "C1'1" "C1'1" C 0 0 N N R 139.317 0.677 -6.153 -4.892 1.176 -0.970 "C1'1" 2L8 21 2L8 C1A C1A C 0 1 N N N 142.072 3.903 -7.150 -0.846 0.588 1.179 C1A 2L8 22 2L8 "C2'" "C2'" C 0 1 N N N 137.862 5.664 -1.008 6.636 0.583 -2.326 "C2'" 2L8 23 2L8 "C2'1" "C2'1" C 0 0 N N N 140.632 1.306 -5.752 -3.542 1.548 -0.327 "C2'1" 2L8 24 2L8 C2A C2A C 0 1 Y N N 141.952 4.450 -5.761 0.608 0.340 0.868 C2A 2L8 25 2L8 "C3'" "C3'" C 0 1 N N S 138.471 6.838 -1.755 5.391 -0.318 -2.515 "C3'" 2L8 26 2L8 "O3'" "O3'" O 0 1 N N N 137.445 7.723 -2.214 4.831 -0.148 -3.819 "O3'" 2L8 27 2L8 "C3'1" "C3'1" C 0 0 N N S 141.288 1.596 -7.096 -3.059 0.232 0.329 "C3'1" 2L8 28 2L8 "O3'1" "O3'1" O 0 0 N N N 141.051 2.952 -7.488 -1.655 0.049 0.132 "O3'1" 2L8 29 2L8 C3A C3A C 0 1 Y N N 140.951 5.188 -5.176 1.107 -0.290 -0.220 C3A 2L8 30 2L8 "C4'" "C4'" C 0 1 N N R 139.199 6.197 -2.940 4.430 0.222 -1.426 "C4'" 2L8 31 2L8 "O4'" "O4'" O 0 1 N N N 138.750 4.823 -3.010 5.311 0.537 -0.326 "O4'" 2L8 32 2L8 "C4'1" "C4'1" C 0 0 N N R 140.596 0.636 -8.072 -3.870 -0.836 -0.448 "C4'1" 2L8 33 2L8 "O4'1" "O4'1" O 0 0 N N N 139.623 -0.096 -7.290 -5.151 -0.202 -0.653 "O4'1" 2L8 34 2L8 N4A N4A N 0 1 Y N N 142.917 4.264 -4.812 1.658 0.705 1.612 N4A 2L8 35 2L8 "C5'1" "C5'1" C 0 0 N N N 141.510 -0.347 -8.766 -4.026 -2.108 0.387 "C5'1" 2L8 36 2L8 "O5'1" "O5'1" O 0 0 N N N 142.000 -1.312 -7.834 -4.674 -3.114 -0.393 "O5'1" 2L8 37 2L8 N5A N5A N 0 1 Y N N 142.567 4.838 -3.697 2.737 0.321 1.025 N5A 2L8 38 2L8 N6A N6A N 0 1 Y N N 141.371 5.404 -3.906 2.453 -0.280 -0.077 N6A 2L8 39 2L8 C7A C7A C 0 1 N N N 140.726 6.128 -2.817 3.420 -0.852 -1.017 C7A 2L8 40 2L8 OP3 OP3 O 0 1 N N N 142.901 -3.686 -6.966 -5.611 -5.491 -1.013 OP3 2L8 41 2L8 OP1 OP1 O 0 1 N N N 143.771 -2.364 -9.242 -3.757 -5.209 0.676 OP1 2L8 42 2L8 H3 H3 H 0 1 N N N 136.516 1.105 0.451 9.134 -1.868 1.061 H3 2L8 43 2L8 H1N3 H1N3 H 0 0 N N N 136.419 -0.280 -2.892 -7.467 2.614 2.352 H1N3 2L8 44 2L8 H6 H6 H 0 1 N N N 139.629 2.838 -2.687 8.313 2.758 0.155 H6 2L8 45 2L8 H1C6 H1C6 H 0 0 N N N 139.991 -1.833 -5.609 -6.341 2.976 -2.283 H1C6 2L8 46 2L8 "HC2'" "HC2'" H 0 0 N N N 140.483 2.223 -5.164 -2.835 1.877 -1.088 "HC2'" 2L8 47 2L8 "H2'" "H2'" H 0 1 N N N 136.887 5.929 -0.573 6.627 1.401 -3.046 "H2'" 2L8 48 2L8 "HC5'" "HC5'" H 0 0 N N N 140.950 -0.863 -9.560 -3.042 -2.464 0.694 "HC5'" 2L8 49 2L8 "H1'" "H1'" H 0 1 N N N 136.704 4.649 -2.486 6.397 2.211 -0.913 "H1'" 2L8 50 2L8 "H11'" "H11'" H 0 0 N N N 138.580 1.478 -6.309 -4.836 1.305 -2.051 "H11'" 2L8 51 2L8 H1A H1A H 0 1 N N N 142.001 4.744 -7.855 -1.104 0.106 2.122 H1A 2L8 52 2L8 H1AA H1AA H 0 0 N N N 143.047 3.401 -7.236 -1.023 1.661 1.259 H1AA 2L8 53 2L8 "H2'A" "H2'A" H 0 0 N N N 138.513 5.332 -0.185 7.549 -0.004 -2.424 "H2'A" 2L8 54 2L8 "H12'" "H12'" H 0 0 N N N 141.240 0.625 -5.139 -3.680 2.322 0.428 "H12'" 2L8 55 2L8 "H3'" "H3'" H 0 1 N N N 139.144 7.438 -1.124 5.637 -1.365 -2.333 "H3'" 2L8 56 2L8 "H13'" "H13'" H 0 0 N N N 142.379 1.459 -7.067 -3.306 0.213 1.390 "H13'" 2L8 57 2L8 H3A H3A H 0 1 N N N 140.030 5.523 -5.630 0.545 -0.716 -1.038 H3A 2L8 58 2L8 "H4'" "H4'" H 0 1 N N N 138.971 6.823 -3.815 3.918 1.119 -1.776 "H4'" 2L8 59 2L8 "H14'" "H14'" H 0 0 N N N 140.162 1.237 -8.884 -3.395 -1.058 -1.404 "H14'" 2L8 60 2L8 "H15'" "H15'" H 0 0 N N N 142.360 0.197 -9.204 -4.626 -1.891 1.271 "H15'" 2L8 61 2L8 H71 H71 H 0 1 N N N 140.964 0.948 -2.612 11.342 1.946 2.174 H71 2L8 62 2L8 H1C7 H1C7 H 0 0 N N N 139.987 -3.939 -4.645 -9.057 5.203 -1.028 H1C7 2L8 63 2L8 H73 H73 H 0 1 N N N 140.962 0.150 -1.003 10.955 2.982 0.779 H73 2L8 64 2L8 H1CA H1CA H 0 0 N N N 139.532 -3.907 -2.908 -7.600 5.379 -2.035 H1CA 2L8 65 2L8 H72 H72 H 0 1 N N N 140.016 -0.556 -2.357 9.993 3.103 2.272 H72 2L8 66 2L8 H1CB H1CB H 0 0 N N N 138.348 -4.470 -4.137 -8.805 4.129 -2.425 H1CB 2L8 67 2L8 H7AA H7AA H 0 0 N N N 141.115 7.157 -2.814 2.897 -1.214 -1.902 H7AA 2L8 68 2L8 H7AB H7AB H 0 0 N N N 140.969 5.615 -1.875 3.944 -1.681 -0.541 H7AB 2L8 69 2L8 OP2 OP2 O 0 1 N N N 141.711 -3.733 -9.340 -6.071 -4.477 1.368 OP2 2L8 70 2L8 "HO3'" "HO3'" H 0 0 N N N 137.839 8.452 -2.679 5.431 -0.388 -4.539 "HO3'" 2L8 71 2L8 HOP3 HOP3 H 0 0 N N N 143.815 -3.945 -6.934 -5.832 -6.394 -0.745 HOP3 2L8 72 2L8 HOP2 HOP2 H 0 0 N N N 142.145 -3.835 -10.179 -6.913 -4.078 1.109 HOP2 2L8 73 # 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 2L8 N1 C2 SING N N 1 2L8 N1 C6 SING N N 2 2L8 N1 "C1'" SING N N 3 2L8 P1 "O5'1" SING N N 4 2L8 P1 OP3 SING N N 5 2L8 P1 OP1 DOUB N N 6 2L8 P1 OP2 SING N N 7 2L8 N11 C21 SING N N 8 2L8 N11 C61 SING N N 9 2L8 N11 "C1'1" SING N N 10 2L8 C2 O2 DOUB N N 11 2L8 C2 N3 SING N N 12 2L8 C21 O21 DOUB N N 13 2L8 C21 N31 SING N N 14 2L8 C4 N3 SING N N 15 2L8 N3 H3 SING N N 16 2L8 N31 C41 SING N N 17 2L8 N31 H1N3 SING N N 18 2L8 C4 O4 DOUB N N 19 2L8 C4 C5 SING N N 20 2L8 C41 O41 DOUB N N 21 2L8 C41 C51 SING N N 22 2L8 C5 C6 DOUB N N 23 2L8 C5 C7 SING N N 24 2L8 C51 C61 DOUB N N 25 2L8 C51 C71 SING N N 26 2L8 C6 H6 SING N N 27 2L8 C61 H1C6 SING N N 28 2L8 C7 H71 SING N N 29 2L8 C7 H73 SING N N 30 2L8 C7 H72 SING N N 31 2L8 C71 H1C7 SING N N 32 2L8 C71 H1CA SING N N 33 2L8 C71 H1CB SING N N 34 2L8 "C1'" "C2'" SING N N 35 2L8 "C1'" "O4'" SING N N 36 2L8 "C1'" "H1'" SING N N 37 2L8 "C1'1" "C2'1" SING N N 38 2L8 "C1'1" "O4'1" SING N N 39 2L8 "C1'1" "H11'" SING N N 40 2L8 C1A C2A SING N N 41 2L8 C1A "O3'1" SING N N 42 2L8 C1A H1A SING N N 43 2L8 C1A H1AA SING N N 44 2L8 "C2'" "C3'" SING N N 45 2L8 "C2'" "H2'" SING N N 46 2L8 "C2'" "H2'A" SING N N 47 2L8 "C2'1" "C3'1" SING N N 48 2L8 "C2'1" "HC2'" SING N N 49 2L8 "C2'1" "H12'" SING N N 50 2L8 C2A C3A DOUB Y N 51 2L8 C2A N4A SING Y N 52 2L8 "C3'" "O3'" SING N N 53 2L8 "C3'" "C4'" SING N N 54 2L8 "C3'" "H3'" SING N N 55 2L8 "O3'" "HO3'" SING N N 56 2L8 "C3'1" "O3'1" SING N N 57 2L8 "C3'1" "C4'1" SING N N 58 2L8 "C3'1" "H13'" SING N N 59 2L8 C3A N6A SING Y N 60 2L8 C3A H3A SING N N 61 2L8 "C4'" "O4'" SING N N 62 2L8 "C4'" C7A SING N N 63 2L8 "C4'" "H4'" SING N N 64 2L8 "C4'1" "O4'1" SING N N 65 2L8 "C4'1" "C5'1" SING N N 66 2L8 "C4'1" "H14'" SING N N 67 2L8 N4A N5A DOUB Y N 68 2L8 "C5'1" "O5'1" SING N N 69 2L8 "C5'1" "HC5'" SING N N 70 2L8 "C5'1" "H15'" SING N N 71 2L8 N5A N6A SING Y N 72 2L8 N6A C7A SING N N 73 2L8 C7A H7AA SING N N 74 2L8 C7A H7AB SING N N 75 2L8 OP3 HOP3 SING N N 76 2L8 OP2 HOP2 SING N N 77 # 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 2L8 SMILES ACDLabs 12.01 "O=C1C(=CN(C(=O)N1)C2OC(C(O)C2)Cn3nnc(c3)COC5C(OC(N4C(=O)NC(=O)C(=C4)C)C5)COP(=O)(O)O)C" 2L8 SMILES_CANONICAL CACTVS 3.370 "CC1=CN([C@H]2C[C@H](O)[C@@H](Cn3cc(CO[C@H]4C[C@@H](O[C@@H]4CO[P](O)(O)=O)N5C=C(C)C(=O)NC5=O)nn3)O2)C(=O)NC1=O" 2L8 SMILES CACTVS 3.370 "CC1=CN([CH]2C[CH](O)[CH](Cn3cc(CO[CH]4C[CH](O[CH]4CO[P](O)(O)=O)N5C=C(C)C(=O)NC5=O)nn3)O2)C(=O)NC1=O" 2L8 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)Cn3cc(nn3)CO[C@H]4C[C@@H](O[C@@H]4COP(=O)(O)O)N5C=C(C(=O)NC5=O)C)O" 2L8 SMILES "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)NC1=O)C2CC(C(O2)Cn3cc(nn3)COC4CC(OC4COP(=O)(O)O)N5C=C(C(=O)NC5=O)C)O" 2L8 InChI InChI 1.03 ;InChI=1S/C23H30N7O12P/c1-11-5-29(22(34)24-20(11)32)18-3-14(31)16(41-18)8-28-7-13(26-27-28)9-39-15-4-19(42-17(15)10-40-43(36,37)38)30-6-12(2)21(33)25-23(30)35/h5-7,14-19,31H,3-4,8-10H2,1-2H3,(H,24,32,34)(H,25,33,35)(H2,36,37,38)/t14-,15-,16+,17+,18+,19+/m0/s1 ; 2L8 InChIKey InChI 1.03 GCOPBTIRIXNQDW-GRUVHVDGSA-N # 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 2L8 "SYSTEMATIC NAME" ACDLabs 12.01 ;[(2R,3S,5R)-3-[(1-{[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl}-1H-1,2,3-triazol-4-yl)methoxy]-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name) ; 2L8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "[(2R,3S,5R)-3-[[1-[[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl]-1,2,3-triazol-4-yl]methoxy]-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen 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 2L8 "Create component" 2011-01-26 RCSB 2L8 "Other modification" 2011-02-09 RCSB 2L8 "Modify descriptor" 2011-06-04 RCSB #