data_2AA # _chem_comp.id 2AA _chem_comp.name "5'-O-{[({[2-({[5-(DIMETHYLAMINO)NAPHTHALEN-1-YL]SULFONYL}AMINO)ETHYL]OXY}PHOSPHINATO)OXY]PHOSPHINATO}CYT" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H31 N5 O13 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2005-09-26 _chem_comp.pdbx_modified_date 2012-01-05 _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 679.530 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 2AA _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 ? _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 2AA C13 C13 C 0 1 N N N 2.248 21.240 37.999 -1.602 5.067 -0.334 C13 2AA 1 2AA N5 N5 N 0 1 N N N 3.362 20.597 37.677 -3.006 4.967 -0.752 N5 2AA 2 2AA C12 C12 C 0 1 N N N 4.363 20.638 38.548 -3.270 5.816 -1.922 C12 2AA 3 2AA C11 C11 C 0 1 Y N N 3.478 19.956 36.484 -3.358 3.643 -1.008 C11 2AA 4 2AA C10 C10 C 0 1 Y N N 3.068 20.645 35.333 -2.696 2.923 -1.980 C10 2AA 5 2AA "C9'" C9* C 0 1 Y N N 3.153 20.065 34.065 -3.039 1.600 -2.243 "C9'" 2AA 6 2AA "C8'" C8* C 0 1 Y N N 3.661 18.778 33.934 -4.035 0.981 -1.551 "C8'" 2AA 7 2AA "C7'" C7* C 0 1 Y N N 4.086 18.071 35.059 -4.734 1.680 -0.552 "C7'" 2AA 8 2AA "C6'" C6* C 0 1 Y N N 4.001 18.648 36.340 -4.390 3.025 -0.270 "C6'" 2AA 9 2AA "C5'" C5* C 0 1 Y N N 4.439 17.896 37.439 -5.085 3.719 0.732 "C5'" 2AA 10 2AA "C4'" C4* C 0 1 Y N N 4.949 16.608 37.264 -6.075 3.091 1.424 "C4'" 2AA 11 2AA "C3'" C3* C 0 1 Y N N 5.037 16.045 35.990 -6.411 1.766 1.153 "C3'" 2AA 12 2AA "C2'" C2* C 0 1 Y N N 4.594 16.782 34.896 -5.766 1.066 0.180 "C2'" 2AA 13 2AA S1 S1 S 0 1 N N N 4.700 16.101 33.298 -6.207 -0.609 -0.147 S1 2AA 14 2AA "O3'" O3* O 0 1 N N N 3.841 14.852 33.201 -7.214 -0.949 0.797 "O3'" 2AA 15 2AA "O4'" O4* O 0 1 N N N 4.235 17.108 32.269 -6.393 -0.708 -1.552 "O4'" 2AA 16 2AA N4 N4 N 0 1 N N N 6.287 15.763 33.067 -4.890 -1.543 0.218 N4 2AA 17 2AA "C1'" C1* C 0 1 N N N 6.709 16.512 31.887 -4.396 -1.607 1.596 "C1'" 2AA 18 2AA C9 C9 C 0 1 N N N 6.313 15.654 30.699 -3.462 -2.809 1.747 C9 2AA 19 2AA "O2'" O2* O 0 1 N N N 7.424 14.852 30.385 -2.300 -2.615 0.938 "O2'" 2AA 20 2AA P2 P2 P 0 1 N N R 7.895 14.937 28.869 -1.102 -3.687 0.853 P2 2AA 21 2AA "O1'" O1* O 0 1 N N N 7.079 15.980 28.175 -0.600 -3.974 2.216 "O1'" 2AA 22 2AA O9 O9 O 0 1 N N N 9.398 14.979 28.763 -1.643 -5.047 0.184 O9 2AA 23 2AA O8 O8 O 0 1 N N N 7.390 13.463 28.448 0.093 -3.086 -0.043 O8 2AA 24 2AA P1 P1 P 0 1 N N S 8.313 12.150 28.637 1.637 -3.486 -0.263 P1 2AA 25 2AA O7 O7 O 0 1 N N N 7.380 11.004 28.818 2.234 -3.880 1.033 O7 2AA 26 2AA O6 O6 O 0 1 N N N 9.341 12.081 27.584 1.730 -4.719 -1.294 O6 2AA 27 2AA O5 O5 O 0 1 N N N 9.088 12.331 30.013 2.439 -2.225 -0.861 O5 2AA 28 2AA C14 C14 C 0 1 N N N 9.509 11.059 30.516 3.852 -2.228 -1.069 C14 2AA 29 2AA C8 C8 C 0 1 N N R 10.183 11.053 31.877 4.286 -0.879 -1.646 C8 2AA 30 2AA O2 O2 O 0 1 N N N 10.406 9.626 32.108 4.083 0.157 -0.672 O2 2AA 31 2AA C7 C7 C 0 1 N N S 11.561 11.696 31.757 5.792 -0.910 -1.975 C7 2AA 32 2AA O4 O4 O 0 1 N N N 11.608 12.855 32.584 6.005 -0.670 -3.367 O4 2AA 33 2AA C6 C6 C 0 1 N N R 12.523 10.675 32.318 6.388 0.241 -1.129 C6 2AA 34 2AA O3 O3 O 0 1 N N N 12.607 10.872 33.732 7.370 0.966 -1.874 O3 2AA 35 2AA C5 C5 C 0 1 N N R 11.836 9.342 32.048 5.142 1.121 -0.854 C5 2AA 36 2AA N3 N3 N 0 1 Y N N 12.260 8.610 30.809 5.330 1.917 0.361 N3 2AA 37 2AA C4 C4 C 0 1 Y N N 11.919 8.994 29.488 5.302 3.278 0.292 C4 2AA 38 2AA C3 C3 C 0 1 Y N N 12.355 8.228 28.400 5.477 4.002 1.422 C3 2AA 39 2AA C2 C2 C 0 1 Y N N 13.119 7.085 28.613 5.685 3.326 2.642 C2 2AA 40 2AA N2 N2 N 0 1 N N N 13.550 6.333 27.601 5.865 4.037 3.806 N2 2AA 41 2AA N1 N1 N 0 1 Y N N 13.452 6.710 29.904 5.705 1.999 2.661 N1 2AA 42 2AA C1 C1 C 0 1 Y N N 13.039 7.459 30.991 5.525 1.300 1.541 C1 2AA 43 2AA O1 O1 O 0 1 N N N 13.360 7.100 32.118 5.543 0.082 1.586 O1 2AA 44 2AA H131 1H13 H 0 0 N N N 1.378 20.632 37.711 -1.354 6.111 -0.141 H131 2AA 45 2AA H132 2H13 H 0 0 N N N 2.215 22.203 37.469 -1.451 4.484 0.574 H132 2AA 46 2AA H133 3H13 H 0 0 N N N 2.227 21.418 39.084 -0.959 4.681 -1.125 H133 2AA 47 2AA H121 1H12 H 0 0 N N N 4.320 19.751 39.198 -2.635 5.502 -2.750 H121 2AA 48 2AA H122 2H12 H 0 0 N N N 4.278 21.547 39.161 -4.317 5.723 -2.210 H122 2AA 49 2AA H123 3H12 H 0 0 N N N 5.321 20.649 38.007 -3.053 6.855 -1.672 H123 2AA 50 2AA H10 H10 H 0 1 N N N 2.677 21.647 35.429 -1.903 3.391 -2.544 H10 2AA 51 2AA "H9'" H9* H 0 1 N N N 2.826 20.612 33.193 -2.508 1.056 -3.010 "H9'" 2AA 52 2AA "H8'" H8* H 0 1 N N N 3.727 18.323 32.957 -4.287 -0.046 -1.769 "H8'" 2AA 53 2AA "H5'" H5* H 0 1 N N N 4.381 18.317 38.432 -4.835 4.746 0.954 "H5'" 2AA 54 2AA "H4'" H4* H 0 1 N N N 5.279 16.042 38.123 -6.609 3.628 2.195 "H4'" 2AA 55 2AA "H3'" H3* H 0 1 N N N 5.442 15.053 35.855 -7.199 1.290 1.717 "H3'" 2AA 56 2AA HN4 HN4 H 0 1 N N N 6.822 16.040 33.865 -4.445 -2.048 -0.481 HN4 2AA 57 2AA "H1'1" 1H1* H 0 0 N N N 7.790 16.715 31.900 -3.851 -0.692 1.829 "H1'1" 2AA 58 2AA "H1'2" 2H1* H 0 0 N N N 6.209 17.491 31.846 -5.238 -1.713 2.279 "H1'2" 2AA 59 2AA H91 1H9 H 0 1 N N N 6.026 16.280 29.841 -3.165 -2.909 2.791 H91 2AA 60 2AA H92 2H9 H 0 1 N N N 5.447 15.025 30.954 -3.980 -3.714 1.429 H92 2AA 61 2AA HO9 HO9 H 0 1 N N N 9.651 14.988 27.847 -1.988 -4.934 -0.712 HO9 2AA 62 2AA HO6 HO6 H 0 1 N N N 8.922 12.066 26.732 1.357 -4.532 -2.166 HO6 2AA 63 2AA H141 1H14 H 0 0 N N N 10.272 10.702 29.809 4.359 -2.397 -0.119 H141 2AA 64 2AA H142 2H14 H 0 0 N N N 8.611 10.429 30.596 4.115 -3.023 -1.767 H142 2AA 65 2AA H8 H8 H 0 1 N N N 9.602 11.575 32.652 3.713 -0.660 -2.547 H8 2AA 66 2AA H7 H7 H 0 1 N N N 11.796 11.981 30.721 6.227 -1.866 -1.682 H7 2AA 67 2AA HO4 HO4 H 0 1 N N N 11.618 12.593 33.497 6.936 -0.679 -3.630 HO4 2AA 68 2AA H6 H6 H 0 1 N N N 13.533 10.735 31.886 6.810 -0.138 -0.199 H6 2AA 69 2AA HO3 HO3 H 0 1 N N N 12.626 10.029 34.169 8.128 0.432 -2.148 HO3 2AA 70 2AA H5 H5 H 0 1 N N N 12.145 8.612 32.811 4.932 1.766 -1.707 H5 2AA 71 2AA H4 H4 H 0 1 N N N 11.322 9.878 29.320 5.141 3.773 -0.654 H4 2AA 72 2AA H3 H3 H 0 1 N N N 12.098 8.525 27.394 5.458 5.082 1.390 H3 2AA 73 2AA HN21 1HN2 H 0 0 N N N 14.102 5.504 27.688 5.850 5.006 3.789 HN21 2AA 74 2AA HN22 2HN2 H 0 0 N N N 13.232 6.731 26.740 6.008 3.569 4.643 HN22 2AA 75 # 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 2AA C13 N5 SING N N 1 2AA C13 H131 SING N N 2 2AA C13 H132 SING N N 3 2AA C13 H133 SING N N 4 2AA N5 C12 SING N N 5 2AA N5 C11 SING N N 6 2AA C12 H121 SING N N 7 2AA C12 H122 SING N N 8 2AA C12 H123 SING N N 9 2AA C11 C10 DOUB Y N 10 2AA C11 "C6'" SING Y N 11 2AA C10 "C9'" SING Y N 12 2AA C10 H10 SING N N 13 2AA "C9'" "C8'" DOUB Y N 14 2AA "C9'" "H9'" SING N N 15 2AA "C8'" "C7'" SING Y N 16 2AA "C8'" "H8'" SING N N 17 2AA "C7'" "C6'" DOUB Y N 18 2AA "C7'" "C2'" SING Y N 19 2AA "C6'" "C5'" SING Y N 20 2AA "C5'" "C4'" DOUB Y N 21 2AA "C5'" "H5'" SING N N 22 2AA "C4'" "C3'" SING Y N 23 2AA "C4'" "H4'" SING N N 24 2AA "C3'" "C2'" DOUB Y N 25 2AA "C3'" "H3'" SING N N 26 2AA "C2'" S1 SING N N 27 2AA S1 "O3'" DOUB N N 28 2AA S1 "O4'" DOUB N N 29 2AA S1 N4 SING N N 30 2AA N4 "C1'" SING N N 31 2AA N4 HN4 SING N N 32 2AA "C1'" C9 SING N N 33 2AA "C1'" "H1'1" SING N N 34 2AA "C1'" "H1'2" SING N N 35 2AA C9 "O2'" SING N N 36 2AA C9 H91 SING N N 37 2AA C9 H92 SING N N 38 2AA "O2'" P2 SING N N 39 2AA P2 "O1'" DOUB N N 40 2AA P2 O9 SING N N 41 2AA P2 O8 SING N N 42 2AA O9 HO9 SING N N 43 2AA O8 P1 SING N N 44 2AA P1 O7 DOUB N N 45 2AA P1 O6 SING N N 46 2AA P1 O5 SING N N 47 2AA O6 HO6 SING N N 48 2AA O5 C14 SING N N 49 2AA C14 C8 SING N N 50 2AA C14 H141 SING N N 51 2AA C14 H142 SING N N 52 2AA C8 O2 SING N N 53 2AA C8 C7 SING N N 54 2AA C8 H8 SING N N 55 2AA O2 C5 SING N N 56 2AA C7 O4 SING N N 57 2AA C7 C6 SING N N 58 2AA C7 H7 SING N N 59 2AA O4 HO4 SING N N 60 2AA C6 O3 SING N N 61 2AA C6 C5 SING N N 62 2AA C6 H6 SING N N 63 2AA O3 HO3 SING N N 64 2AA C5 N3 SING N N 65 2AA C5 H5 SING N N 66 2AA N3 C4 SING Y N 67 2AA N3 C1 SING Y N 68 2AA C4 C3 DOUB Y N 69 2AA C4 H4 SING N N 70 2AA C3 C2 SING Y N 71 2AA C3 H3 SING N N 72 2AA C2 N2 SING N N 73 2AA C2 N1 DOUB Y N 74 2AA N2 HN21 SING N N 75 2AA N2 HN22 SING N N 76 2AA N1 C1 SING Y N 77 2AA C1 O1 DOUB N N 78 # 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 2AA SMILES ACDLabs 10.04 "O=S(=O)(c2c1cccc(N(C)C)c1ccc2)NCCOP(=O)(O)OP(=O)(O)OCC4OC(N3C(=O)N=C(N)C=C3)C(O)C4O" 2AA InChI InChI 1.03 ;InChI=1S/C23H31N5O13P2S/c1-27(2)16-7-3-6-15-14(16)5-4-8-18(15)44(36,37)25-10-12-38-42(32,33)41-43(34,35)39-13-17-20(29)21(30)22(40-17)28-11-9-19(24)26-23(28)31/h3-9,11,17,20-22,25,29-30H,10,12-13H2,1-2H3,(H,32,33)(H,34,35)(H2,24,26,31)/t17-,20-,21-,22-/m1/s1 ; 2AA InChIKey InChI 1.03 OXPWLEWKRGQJQO-BRKWEVRTSA-N 2AA SMILES_CANONICAL CACTVS 3.385 "CN(C)c1cccc2c1cccc2[S](=O)(=O)NCCO[P](O)(=O)O[P](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)N4C=CC(=NC4=O)N" 2AA SMILES CACTVS 3.385 "CN(C)c1cccc2c1cccc2[S](=O)(=O)NCCO[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)N4C=CC(=NC4=O)N" 2AA SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "CN(C)c1cccc2c1cccc2S(=O)(=O)NCCO[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)N4C=CC(=NC4=O)N)O)O" 2AA SMILES "OpenEye OEToolkits" 1.7.5 "CN(C)c1cccc2c1cccc2S(=O)(=O)NCCOP(=O)(O)OP(=O)(O)OCC3C(C(C(O3)N4C=CC(=NC4=O)N)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 2AA "SYSTEMATIC NAME" ACDLabs 10.04 "5'-O-[(S)-{[(R)-[2-({[5-(dimethylamino)naphthalen-1-yl]sulfonyl}amino)ethoxy](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]cytidine" 2AA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] 2-[(5-dimethylaminonaphthalen-1-yl)sulfonylamino]ethyl 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 2AA "Create component" 2005-09-26 RCSB 2AA "Modify descriptor" 2011-06-04 RCSB 2AA "Modify descriptor" 2012-01-05 RCSB 2AA "Modify coordinates" 2012-01-05 RCSB #