data_LAD # _chem_comp.id LAD _chem_comp.name "ADENOSINE-5'-[LYSYL-PHOSPHATE]" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H26 N7 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2000-05-11 _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 475.394 _chem_comp.one_letter_code ? _chem_comp.three_letter_code LAD _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1E1T _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # 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 LAD N N N 0 1 N N N 20.720 66.319 32.758 -1.223 0.323 6.946 N LAD 1 LAD CA CA C 0 1 N N S 20.320 66.009 34.132 -0.492 0.555 5.694 CA LAD 2 LAD CB CB C 0 1 N N N 19.748 64.589 34.174 0.911 -0.043 5.804 CB LAD 3 LAD CG CG C 0 1 N N N 18.617 64.356 33.199 1.659 0.619 6.961 CG LAD 4 LAD CD CD C 0 1 N N N 17.474 65.302 33.490 3.062 0.020 7.071 CD LAD 5 LAD CE CE C 0 1 N N N 16.248 64.916 32.687 3.811 0.683 8.229 CE LAD 6 LAD NZ NZ N 0 1 N N N 16.286 65.506 31.313 5.158 0.108 8.335 NZ LAD 7 LAD C C C 0 1 N N N 21.534 66.157 35.085 -1.229 -0.097 4.553 C LAD 8 LAD O O O 0 1 N N N 22.680 66.306 34.626 -1.888 -1.090 4.750 O LAD 9 LAD PA PA P 0 1 N N R 22.140 66.691 37.678 -1.941 -0.273 2.100 PA LAD 10 LAD "O5'" "O5'" O 0 1 N N N 23.050 65.381 37.759 -1.676 0.555 0.745 "O5'" LAD 11 LAD "C5'" "C5'" C 0 1 N N N 22.492 64.063 37.794 -2.398 -0.110 -0.293 "C5'" LAD 12 LAD "C4'" "C4'" C 0 1 N N R 22.950 63.352 39.049 -2.188 0.630 -1.615 "C4'" LAD 13 LAD "O4'" "O4'" O 0 1 N N N 24.396 63.265 39.029 -0.794 0.616 -1.967 "O4'" LAD 14 LAD "C1'" "C1'" C 0 1 N N R 24.876 63.162 40.359 -0.724 0.543 -3.407 "C1'" LAD 15 LAD N9 N9 N 0 1 Y N N 26.009 64.072 40.506 0.578 0.027 -3.834 N9 LAD 16 LAD C4 C4 C 0 1 Y N N 27.249 63.748 41.012 1.213 0.306 -5.018 C4 LAD 17 LAD N3 N3 N 0 1 Y N N 27.664 62.545 41.449 0.935 1.058 -6.077 N3 LAD 18 LAD C2 C2 C 0 1 Y N N 28.922 62.608 41.875 1.775 1.131 -7.088 C2 LAD 19 LAD N1 N1 N 0 1 Y N N 29.755 63.662 41.901 2.922 0.477 -7.105 N1 LAD 20 LAD C6 C6 C 0 1 Y N N 29.315 64.849 41.435 3.288 -0.296 -6.087 C6 LAD 21 LAD N6 N6 N 0 1 N N N 30.169 65.882 41.424 4.492 -0.978 -6.114 N6 LAD 22 LAD C5 C5 C 0 1 Y N N 27.990 64.921 40.969 2.424 -0.405 -4.985 C5 LAD 23 LAD N7 N7 N 0 1 Y N N 27.232 65.956 40.437 2.461 -1.075 -3.808 N7 LAD 24 LAD C8 C8 C 0 1 Y N N 26.071 65.402 40.181 1.378 -0.823 -3.132 C8 LAD 25 LAD "C2'" "C2'" C 0 1 N N R 23.692 63.427 41.291 -1.856 -0.448 -3.775 "C2'" LAD 26 LAD "O2'" "O2'" O 0 1 N N N 23.198 62.194 41.759 -2.315 -0.226 -5.109 "O2'" LAD 27 LAD "C3'" "C3'" C 0 1 N N S 22.688 64.088 40.354 -2.956 -0.083 -2.743 "C3'" LAD 28 LAD "O3'" "O3'" O 0 1 N N N 21.351 63.912 40.811 -3.922 0.790 -3.331 "O3'" LAD 29 LAD O1A O1A O 0 1 N N N 21.429 66.761 38.970 -3.392 -0.287 2.394 O1A LAD 30 LAD O2A O2A O 0 1 N N N 23.071 67.808 37.388 -1.416 -1.784 1.917 O2A LAD 31 LAD O3A O3A O 0 1 N N N 21.115 66.348 36.461 -1.154 0.424 3.319 O3A LAD 32 LAD H2A 2H H 0 1 N N N 21.101 67.264 32.730 -0.646 0.684 7.691 H2A LAD 33 LAD H1 1H H 0 1 N N N 19.958 66.186 32.092 -1.269 -0.676 7.074 H1 LAD 34 LAD HA HA H 0 1 N N N 19.534 66.722 34.473 -0.416 1.627 5.511 HA LAD 35 LAD HB2 2HB H 0 1 N N N 20.556 63.835 34.024 1.453 0.129 4.874 HB2 LAD 36 LAD HB1 1HB H 0 1 N N N 19.433 64.323 35.210 0.835 -1.115 5.986 HB1 LAD 37 LAD HG2 2HG H 0 1 N N N 18.958 64.428 32.140 1.116 0.447 7.891 HG2 LAD 38 LAD HG1 1HG H 0 1 N N N 18.285 63.291 33.192 1.735 1.691 6.779 HG1 LAD 39 LAD HD2 2HD H 0 1 N N N 17.252 65.361 34.581 3.605 0.192 6.142 HD2 LAD 40 LAD HD1 1HD H 0 1 N N N 17.762 66.365 33.320 2.987 -1.051 7.254 HD1 LAD 41 LAD HE2 2HE H 0 1 N N N 16.114 63.809 32.652 3.268 0.511 9.159 HE2 LAD 42 LAD HE1 1HE H 0 1 N N N 15.307 65.186 33.221 3.887 1.755 8.046 HE1 LAD 43 LAD HZ2 2HZ H 0 1 N N N 15.460 65.246 30.772 5.612 0.572 9.107 HZ2 LAD 44 LAD HZ1 1HZ H 0 1 N N N 17.146 65.258 30.823 5.041 -0.856 8.605 HZ1 LAD 45 LAD "H5'2" "2H5'" H 0 0 N N N 21.381 64.073 37.697 -2.036 -1.134 -0.388 "H5'2" LAD 46 LAD "H5'1" "1H5'" H 0 0 N N N 22.726 63.482 36.871 -3.460 -0.121 -0.047 "H5'1" LAD 47 LAD "H4'" "H4'" H 0 1 N N N 22.386 62.389 39.032 -2.536 1.659 -1.522 "H4'" LAD 48 LAD "H1'" "H1'" H 0 1 N N N 25.267 62.152 40.624 -0.912 1.521 -3.850 "H1'" LAD 49 LAD H2 H2 H 0 1 N N N 29.329 61.657 42.258 1.517 1.748 -7.936 H2 LAD 50 LAD H62 2H6 H 0 1 N N N 29.836 66.779 41.071 5.080 -0.894 -6.881 H62 LAD 51 LAD H61 1H6 H 0 1 N N N 31.009 65.613 40.911 4.748 -1.539 -5.365 H61 LAD 52 LAD H8 H8 H 0 1 N N N 25.243 65.986 39.743 1.148 -1.228 -2.157 H8 LAD 53 LAD "H2'" "H2'" H 0 1 N N N 23.929 64.045 42.187 -1.526 -1.479 -3.645 "H2'" LAD 54 LAD H2O1 1H2O H 0 0 N N N 22.462 62.358 42.337 -3.015 -0.872 -5.275 H2O1 LAD 55 LAD "H3'" "H3'" H 0 1 N N N 22.802 65.194 40.271 -3.438 -0.985 -2.365 "H3'" LAD 56 LAD H3O1 1H3O H 0 0 N N N 21.187 64.371 41.626 -4.325 0.307 -4.066 H3O1 LAD 57 LAD H2AO OH2A H 0 0 N N N 22.529 68.587 37.339 -0.469 -1.729 1.727 H2AO LAD 58 # 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 LAD N CA SING N N 1 LAD N H2A SING N N 2 LAD N H1 SING N N 3 LAD CA CB SING N N 4 LAD CA C SING N N 5 LAD CA HA SING N N 6 LAD CB CG SING N N 7 LAD CB HB2 SING N N 8 LAD CB HB1 SING N N 9 LAD CG CD SING N N 10 LAD CG HG2 SING N N 11 LAD CG HG1 SING N N 12 LAD CD CE SING N N 13 LAD CD HD2 SING N N 14 LAD CD HD1 SING N N 15 LAD CE NZ SING N N 16 LAD CE HE2 SING N N 17 LAD CE HE1 SING N N 18 LAD NZ HZ2 SING N N 19 LAD NZ HZ1 SING N N 20 LAD C O DOUB N N 21 LAD C O3A SING N N 22 LAD PA "O5'" SING N N 23 LAD PA O1A DOUB N N 24 LAD PA O2A SING N N 25 LAD PA O3A SING N N 26 LAD "O5'" "C5'" SING N N 27 LAD "C5'" "C4'" SING N N 28 LAD "C5'" "H5'2" SING N N 29 LAD "C5'" "H5'1" SING N N 30 LAD "C4'" "O4'" SING N N 31 LAD "C4'" "C3'" SING N N 32 LAD "C4'" "H4'" SING N N 33 LAD "O4'" "C1'" SING N N 34 LAD "C1'" N9 SING N N 35 LAD "C1'" "C2'" SING N N 36 LAD "C1'" "H1'" SING N N 37 LAD N9 C4 SING Y N 38 LAD N9 C8 SING Y N 39 LAD C4 N3 DOUB Y N 40 LAD C4 C5 SING Y N 41 LAD N3 C2 SING Y N 42 LAD C2 N1 DOUB Y N 43 LAD C2 H2 SING N N 44 LAD N1 C6 SING Y N 45 LAD C6 N6 SING N N 46 LAD C6 C5 DOUB Y N 47 LAD N6 H62 SING N N 48 LAD N6 H61 SING N N 49 LAD C5 N7 SING Y N 50 LAD N7 C8 DOUB Y N 51 LAD C8 H8 SING N N 52 LAD "C2'" "O2'" SING N N 53 LAD "C2'" "C3'" SING N N 54 LAD "C2'" "H2'" SING N N 55 LAD "O2'" H2O1 SING N N 56 LAD "C3'" "O3'" SING N N 57 LAD "C3'" "H3'" SING N N 58 LAD "O3'" H3O1 SING N N 59 LAD O2A H2AO SING N N 60 # 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 LAD SMILES ACDLabs 10.04 "O=C(OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O)C(N)CCCCN" LAD SMILES_CANONICAL CACTVS 3.341 "NCCCC[C@H](N)C(=O)O[P@@](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23" LAD SMILES CACTVS 3.341 "NCCCC[CH](N)C(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23" LAD SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)OC(=O)[C@H](CCCCN)N)O)O)N" LAD SMILES "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OC(=O)C(CCCCN)N)O)O)N" LAD InChI InChI 1.03 "InChI=1S/C16H26N7O8P/c17-4-2-1-3-8(18)16(26)31-32(27,28)29-5-9-11(24)12(25)15(30-9)23-7-22-10-13(19)20-6-21-14(10)23/h6-9,11-12,15,24-25H,1-5,17-18H2,(H,27,28)(H2,19,20,21)/t8-,9+,11+,12+,15+/m0/s1" LAD InChIKey InChI 1.03 RZWIOOBQBMRZTQ-OPYVMVOTSA-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 LAD "SYSTEMATIC NAME" ACDLabs 10.04 "5'-O-[(R)-{[(2S)-2,6-diaminohexanoyl]oxy}(hydroxy)phosphoryl]adenosine" LAD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] (2S)-2,6-diaminohexanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site LAD "Create component" 2000-05-11 EBI LAD "Modify descriptor" 2011-06-04 RCSB #