data_SL2 # _chem_comp.id SL2 _chem_comp.name ;3'-DEOXY-2'-O-(2,2,5,5-TETRAMETHYL-1-OXYL-PYRROLIN-3-YL) ADENOSINE 5'-DIPHOSPHATE ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H28 N6 O11 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2003-04-23 _chem_comp.pdbx_modified_date 2011-06-04 _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 578.407 _chem_comp.one_letter_code ? _chem_comp.three_letter_code SL2 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details "OpenEye/OEToolkits V1.4.2" _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 SL2 PB PB P 0 1 N N N 3.888 8.720 33.946 -1.010 -2.418 3.032 PB SL2 1 SL2 O1B O1B O 0 1 N N N 5.173 8.277 34.524 -1.433 -1.886 1.695 O1B SL2 2 SL2 O2B O2B O 0 1 N N N 3.864 9.897 33.055 -1.518 -1.564 4.306 O2B SL2 3 SL2 O3A O3A O 0 1 N N N 2.975 9.257 35.145 0.589 -2.492 3.254 O3A SL2 4 SL2 O3B O3B O 0 1 N N N 3.120 7.541 33.424 -1.502 -3.922 3.365 O3B SL2 5 SL2 PA PA P 0 1 N N S 2.683 8.766 36.642 1.717 -1.334 3.234 PA SL2 6 SL2 O1A O1A O 0 1 N N N 0.841 8.981 36.345 1.519 -0.250 4.253 O1A SL2 7 SL2 O2A O2A O 0 1 N N N 3.466 7.572 37.037 3.105 -2.150 3.389 O2A SL2 8 SL2 "O5'" "O5'" O 0 1 N N N 3.156 9.932 37.612 1.700 -0.837 1.695 "O5'" SL2 9 SL2 "C5'" "C5'" C 0 1 N N N 3.962 9.649 38.798 1.877 -1.776 0.645 "C5'" SL2 10 SL2 "C4'" "C4'" C 0 1 N N S 3.277 10.377 39.965 1.818 -1.044 -0.687 "C4'" SL2 11 SL2 "O4'" "O4'" O 0 1 N N N 2.288 11.317 39.418 1.970 -2.005 -1.750 "O4'" SL2 12 SL2 "C3'" "C3'" C 0 1 N N N 2.413 9.380 40.659 0.489 -0.340 -0.918 "C3'" SL2 13 SL2 "C2'" "C2'" C 0 1 N N R 1.055 10.027 40.358 -0.316 -1.374 -1.672 "C2'" SL2 14 SL2 "C1'" "C1'" C 0 1 N N R 1.298 11.478 40.346 0.760 -2.026 -2.527 "C1'" SL2 15 SL2 N9 N9 N 0 1 Y N N 0.344 12.329 39.679 0.455 -3.399 -2.922 N9 SL2 16 SL2 C4 C4 C 0 1 Y N N -0.398 13.249 40.271 -0.144 -3.804 -4.080 C4 SL2 17 SL2 N3 N3 N 0 1 Y N N -0.829 13.496 41.533 -0.577 -3.035 -5.090 N3 SL2 18 SL2 C2 C2 C 0 1 Y N N -1.860 14.320 41.692 -1.117 -3.797 -6.066 C2 SL2 19 SL2 N1 N1 N 0 1 Y N N -2.441 14.924 40.642 -1.250 -5.145 -6.116 N1 SL2 20 SL2 C6 C6 C 0 1 Y N N -2.382 14.872 39.215 -0.791 -5.859 -5.060 C6 SL2 21 SL2 C5 C5 C 0 1 Y N N -0.968 13.936 39.251 -0.212 -5.185 -3.989 C5 SL2 22 SL2 N7 N7 N 0 1 Y N N -0.583 13.543 38.103 0.331 -5.622 -2.807 N7 SL2 23 SL2 C8 C8 C 0 1 Y N N 0.234 12.534 38.389 0.722 -4.526 -2.190 C8 SL2 24 SL2 N6 N6 N 0 1 N N N -2.670 15.259 38.319 -0.900 -7.260 -5.053 N6 SL2 25 SL2 "O3'" "O3'" O 0 1 N N N 0.043 9.482 40.987 -1.318 -0.781 -2.473 "O3'" SL2 26 SL2 C1 C1 C 0 1 N N N -0.162 9.827 42.290 -2.283 -0.094 -1.803 C1 SL2 27 SL2 OC OC O 0 1 N N N 0.140 10.948 42.700 -2.367 0.058 -0.588 OC SL2 28 SL2 CA CA C 0 1 N N N -0.930 8.861 43.148 -3.232 0.451 -2.759 CA SL2 29 SL2 CB CB C 0 1 N N N -1.109 8.971 44.638 -2.874 0.795 -4.001 CB SL2 30 SL2 CC CC C 0 1 N N N -1.649 7.711 45.237 -4.056 1.355 -4.751 CC SL2 31 SL2 CC1 CC1 C 0 1 N N N -3.000 7.979 45.890 -4.246 0.653 -6.099 CC1 SL2 32 SL2 CC2 CC2 C 0 1 N N N -0.621 7.043 46.148 -3.852 2.862 -4.971 CC2 SL2 33 SL2 ND ND N 0 1 N N N -1.705 6.914 44.000 -5.184 0.981 -3.870 ND SL2 34 SL2 OR OR O 0 1 N N N -2.226 5.727 44.050 -6.309 1.871 -3.939 OR SL2 35 SL2 CE CE C 0 1 N N N -1.309 7.487 42.703 -4.689 0.724 -2.496 CE SL2 36 SL2 CE1 CE1 C 0 1 N N N -0.148 6.665 42.146 -5.436 -0.502 -1.957 CE1 SL2 37 SL2 CE2 CE2 C 0 1 N N N -2.342 7.388 41.582 -4.837 1.900 -1.517 CE2 SL2 38 SL2 "H51'" "H51'" H 0 0 N N N 4.527 8.617 39.143 2.847 -2.265 0.769 "H51'" SL2 39 SL2 "H52'" "H52'" H 0 0 N N N 4.566 10.204 38.276 1.085 -2.527 0.704 "H52'" SL2 40 SL2 "H4'" "H4'" H 0 1 N N N 4.065 10.363 40.548 2.650 -0.335 -0.739 "H4'" SL2 41 SL2 "H3'" "H3'" H 0 1 N N N 2.739 8.719 40.007 0.635 0.549 -1.545 "H3'" SL2 42 SL2 "H22'" "H22'" H 0 0 N N N 2.434 9.040 41.917 0.002 -0.002 0.002 "H22'" SL2 43 SL2 "H21'" "H21'" H 0 0 N N N 0.757 9.815 39.349 -0.780 -2.089 -0.983 "H21'" SL2 44 SL2 "H1'" "H1'" H 0 1 N N N 1.661 11.983 41.241 0.934 -1.487 -3.465 "H1'" SL2 45 SL2 H2 H2 H 0 1 N N N -2.238 14.308 42.704 -1.495 -3.258 -6.928 H2 SL2 46 SL2 H8 H8 H 0 1 N N N 0.976 12.252 37.657 1.200 -4.486 -1.221 H8 SL2 47 SL2 H61 H61 H 0 1 N N N -3.488 15.849 38.314 -1.274 -7.721 -4.245 H61 SL2 48 SL2 H62 H62 H 0 1 N N N -2.090 15.142 37.499 -0.517 -7.788 -5.814 H62 SL2 49 SL2 HCB HCB H 0 1 N N N -0.727 9.752 45.277 -1.876 0.714 -4.410 HCB SL2 50 SL2 H1CC H1CC H 0 0 N N N -3.351 6.990 46.182 -3.527 1.029 -6.833 H1CC SL2 51 SL2 H2CC H2CC H 0 0 N N N -3.827 8.285 45.252 -4.100 -0.426 -5.994 H2CC SL2 52 SL2 H3CC H3CC H 0 0 N N N -2.882 8.785 46.615 -5.255 0.828 -6.485 H3CC SL2 53 SL2 H4CC H4CC H 0 0 N N N -0.583 7.775 46.955 -2.807 3.077 -5.210 H4CC SL2 54 SL2 H5CC H5CC H 0 0 N N N 0.370 6.971 45.700 -4.475 3.217 -5.798 H5CC SL2 55 SL2 H6CC H6CC H 0 0 N N N -1.118 6.140 46.507 -4.123 3.421 -4.071 H6CC SL2 56 SL2 HOR HOR H 0 1 N N N -3.114 5.950 43.757 -6.567 1.746 -4.869 HOR SL2 57 SL2 H1CE H1CE H 0 0 N N N -0.444 5.636 41.943 -4.791 -1.081 -1.288 H1CE SL2 58 SL2 H2CE H2CE H 0 0 N N N 0.556 6.708 42.977 -6.325 -0.196 -1.398 H2CE SL2 59 SL2 H3CE H3CE H 0 0 N N N 0.497 6.994 40.874 -5.751 -1.152 -2.778 H3CE SL2 60 SL2 H4CE H4CE H 0 0 N N N -2.750 6.378 41.537 -4.259 1.717 -0.607 H4CE SL2 61 SL2 H5CE H5CE H 0 0 N N N -1.970 7.629 40.588 -4.479 2.827 -1.973 H5CE SL2 62 SL2 H6CE H6CE H 0 0 N N N -3.284 7.884 41.812 -5.886 2.037 -1.237 H6CE SL2 63 SL2 HO1 HO1 H 0 1 N N N 3.634 7.035 36.271 3.378 -2.456 4.280 HO1 SL2 64 SL2 HO2 HO2 H 0 1 N N N 3.859 10.690 33.578 -2.463 -1.304 4.357 HO2 SL2 65 SL2 HO3 HO3 H 0 1 N N N 2.958 7.654 32.495 -2.445 -4.155 3.225 HO3 SL2 66 # 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 SL2 PB O1B DOUB N N 1 SL2 PB O2B SING N N 2 SL2 PB O3A SING N N 3 SL2 PB O3B SING N N 4 SL2 O3A PA SING N N 5 SL2 PA O1A DOUB N N 6 SL2 PA O2A SING N N 7 SL2 PA "O5'" SING N N 8 SL2 "O5'" "C5'" SING N N 9 SL2 "C5'" "C4'" SING N N 10 SL2 "C5'" "H51'" SING N N 11 SL2 "C5'" "H52'" SING N N 12 SL2 "C4'" "O4'" SING N N 13 SL2 "C4'" "C3'" SING N N 14 SL2 "C4'" "H4'" SING N N 15 SL2 "O4'" "C1'" SING N N 16 SL2 "C3'" "C2'" SING N N 17 SL2 "C3'" "H3'" SING N N 18 SL2 "C3'" "H22'" SING N N 19 SL2 "C2'" "C1'" SING N N 20 SL2 "C2'" "O3'" SING N N 21 SL2 "C2'" "H21'" SING N N 22 SL2 "C1'" N9 SING N N 23 SL2 "C1'" "H1'" SING N N 24 SL2 N9 C4 SING Y N 25 SL2 N9 C8 SING Y N 26 SL2 C4 N3 DOUB Y N 27 SL2 C4 C5 SING Y N 28 SL2 N3 C2 SING Y N 29 SL2 C2 N1 DOUB Y N 30 SL2 C2 H2 SING N N 31 SL2 N1 C6 SING Y N 32 SL2 C6 C5 DOUB Y N 33 SL2 C6 N6 SING N N 34 SL2 C5 N7 SING Y N 35 SL2 N7 C8 DOUB Y N 36 SL2 C8 H8 SING N N 37 SL2 N6 H61 SING N N 38 SL2 N6 H62 SING N N 39 SL2 "O3'" C1 SING N N 40 SL2 C1 OC DOUB N N 41 SL2 C1 CA SING N N 42 SL2 CA CB DOUB N N 43 SL2 CA CE SING N N 44 SL2 CB CC SING N N 45 SL2 CB HCB SING N N 46 SL2 CC CC1 SING N N 47 SL2 CC CC2 SING N N 48 SL2 CC ND SING N N 49 SL2 CC1 H1CC SING N N 50 SL2 CC1 H2CC SING N N 51 SL2 CC1 H3CC SING N N 52 SL2 CC2 H4CC SING N N 53 SL2 CC2 H5CC SING N N 54 SL2 CC2 H6CC SING N N 55 SL2 ND OR SING N N 56 SL2 ND CE SING N N 57 SL2 OR HOR SING N N 58 SL2 CE CE1 SING N N 59 SL2 CE CE2 SING N N 60 SL2 CE1 H1CE SING N N 61 SL2 CE1 H2CE SING N N 62 SL2 CE1 H3CE SING N N 63 SL2 CE2 H4CE SING N N 64 SL2 CE2 H5CE SING N N 65 SL2 CE2 H6CE SING N N 66 SL2 HO1 O2A SING N N 67 SL2 HO2 O2B SING N N 68 SL2 HO3 O3B SING N N 69 # 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 SL2 SMILES ACDLabs 10.04 "O=P(O)(O)OP(=O)(O)OCC4OC(n2cnc1c(ncnc12)N)C(OC(=O)C3=CC(N(O)C3(C)C)(C)C)C4" SL2 SMILES_CANONICAL CACTVS 3.341 "CC1(C)C=C(C(=O)O[C@@H]2C[C@@H](CO[P@@](O)(=O)O[P](O)(O)=O)O[C@H]2n3cnc4c(N)ncnc34)C(C)(C)N1O" SL2 SMILES CACTVS 3.341 "CC1(C)C=C(C(=O)O[CH]2C[CH](CO[P](O)(=O)O[P](O)(O)=O)O[CH]2n3cnc4c(N)ncnc34)C(C)(C)N1O" SL2 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1(C=C(C(N1O)(C)C)C(=O)O[C@@H]2C[C@H](O[C@H]2n3cnc4c3ncnc4N)CO[P@](=O)(O)OP(=O)(O)O)C" SL2 SMILES "OpenEye OEToolkits" 1.5.0 "CC1(C=C(C(N1O)(C)C)C(=O)OC2CC(OC2n3cnc4c3ncnc4N)COP(=O)(O)OP(=O)(O)O)C" SL2 InChI InChI 1.03 "InChI=1S/C19H28N6O11P2/c1-18(2)6-11(19(3,4)25(18)27)17(26)35-12-5-10(7-33-38(31,32)36-37(28,29)30)34-16(12)24-9-23-13-14(20)21-8-22-15(13)24/h6,8-10,12,16,27H,5,7H2,1-4H3,(H,31,32)(H2,20,21,22)(H2,28,29,30)/t10-,12+,16+/m0/s1" SL2 InChIKey InChI 1.03 OKZJCCJOTGBQMI-KANYHAFZSA-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 SL2 "SYSTEMATIC NAME" ACDLabs 10.04 ;3'-deoxy-2'-O-[(1-hydroxy-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)carbonyl]adenosine 5'-(trihydrogen diphosphate) ; SL2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,5S)-2-(6-aminopurin-9-yl)-5-[(hydroxy-phosphonooxy-phosphoryl)oxymethyl]oxolan-3-yl] 1-hydroxy-2,2,5,5-tetramethyl-pyrrole-3-carboxylate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site SL2 "Create component" 2003-04-23 RCSB SL2 "Modify descriptor" 2011-06-04 RCSB #