data_N8M # _chem_comp.id N8M _chem_comp.name "5'-deoxy-5'-(dimethylamino)-8-methyladenosine" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H20 N6 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-04-15 _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 308.336 _chem_comp.one_letter_code ? _chem_comp.three_letter_code N8M _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 3H0W _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 N8M CG CG C 0 1 N N N -18.296 -8.839 8.169 5.444 2.048 0.587 CG N8M 1 N8M N2 N2 N 0 1 N N N -17.656 -8.677 6.849 4.181 1.362 0.891 N2 N8M 2 N8M CE CE C 0 1 N N N -17.632 -9.992 6.171 3.093 2.328 1.094 CE N8M 3 N8M "C5'" C5* C 0 1 N N N -16.282 -8.172 7.036 3.839 0.397 -0.163 C5* N8M 4 N8M "C4'" C4* C 0 1 N N R -15.535 -7.964 5.727 2.666 -0.469 0.299 C4* N8M 5 N8M "O4'" O4* O 0 1 N N N -16.487 -7.423 4.753 1.455 0.316 0.359 O4* N8M 6 N8M "C1'" C1* C 0 1 N N R -16.040 -6.144 4.322 0.377 -0.643 0.308 C1* N8M 7 N8M N9 N9 N 0 1 Y N N -17.234 -5.315 4.124 -0.863 0.006 -0.126 N9 N8M 8 N8M C4 C4 C 0 1 Y N N -18.354 -5.305 4.936 -2.109 -0.179 0.417 C4 N8M 9 N8M N3 N3 N 0 1 Y N N -18.577 -6.046 6.057 -2.601 -0.916 1.408 N3 N8M 10 N8M C2 C2 C 0 1 Y N N -19.781 -5.776 6.600 -3.884 -0.877 1.700 C2 N8M 11 N8M N1 N1 N 0 1 Y N N -20.719 -4.904 6.168 -4.739 -0.119 1.038 N1 N8M 12 N8M C6 C6 C 0 1 Y N N -20.463 -4.172 5.035 -4.340 0.652 0.032 C6 N8M 13 N8M N6 N6 N 0 1 N N N -21.398 -3.303 4.607 -5.243 1.443 -0.656 N6 N8M 14 N8M C5 C5 C 0 1 Y N N -19.215 -4.374 4.371 -2.978 0.645 -0.317 C5 N8M 15 N8M N7 N7 N 0 1 Y N N -18.651 -3.814 3.235 -2.231 1.279 -1.253 N7 N8M 16 N8M C8 C8 C 0 1 Y N N -17.485 -4.397 3.130 -0.989 0.909 -1.139 C8 N8M 17 N8M "C2'" C2* C 0 1 N N R -15.126 -5.650 5.437 0.829 -1.690 -0.734 C2* N8M 18 N8M "O2'" O2* O 0 1 N N N -14.295 -4.585 5.025 0.428 -3.001 -0.333 O2* N8M 19 N8M "C3'" C3* C 0 1 N N S -14.423 -6.928 5.842 2.369 -1.572 -0.740 C3* N8M 20 N8M "O3'" O3* O 0 1 N N N -13.416 -7.235 4.896 2.967 -2.808 -0.343 O3* N8M 21 N8M C9 C9 C 0 1 N N N -16.467 -4.143 2.060 0.143 1.403 -2.002 C9 N8M 22 N8M HG HG H 0 1 N N N -17.522 -8.879 8.950 5.349 2.582 -0.358 HG N8M 23 N8M HGA HGA H 0 1 N N N -18.965 -7.986 8.359 5.674 2.756 1.383 HGA N8M 24 N8M HGB HGB H 0 1 N N N -18.878 -9.772 8.182 6.247 1.314 0.511 HGB N8M 25 N8M HE HE H 0 1 N N N -17.626 -9.843 5.081 2.960 2.920 0.189 HE N8M 26 N8M HEA HEA H 0 1 N N N -16.728 -10.542 6.471 2.170 1.793 1.317 HEA N8M 27 N8M HEB HEB H 0 1 N N N -18.524 -10.568 6.457 3.342 2.986 1.926 HEB N8M 28 N8M "H5'" H5* H 0 1 N N N -16.339 -7.205 7.557 3.560 0.933 -1.070 H5* N8M 29 N8M "H5'A" H5*A H 0 0 N N N -15.730 -8.929 7.613 4.701 -0.238 -0.367 H5*A N8M 30 N8M "H4'" H4* H 0 1 N N N -15.099 -8.932 5.439 2.882 -0.911 1.272 H4* N8M 31 N8M "H1'" H1* H 0 1 N N N -15.483 -6.133 3.374 0.240 -1.112 1.282 H1* N8M 32 N8M H2 H2 H 0 1 N N N -20.028 -6.327 7.495 -4.251 -1.489 2.511 H2 N8M 33 N8M HN6 HN6 H 0 1 N N N -22.022 -3.088 5.358 -6.180 1.439 -0.406 HN6 N8M 34 N8M HN6A HN6A H 0 0 N N N -20.954 -2.464 4.292 -4.939 2.001 -1.389 HN6A N8M 35 N8M "H2'" H2* H 0 1 N N N -15.638 -5.182 6.291 0.424 -1.449 -1.717 H2* N8M 36 N8M "HO2'" HO2* H 0 0 N N N -14.108 -4.023 5.768 0.687 -3.698 -0.952 HO2* N8M 37 N8M "H3'" H3* H 0 1 N N N -13.950 -6.877 6.834 2.726 -1.274 -1.726 H3* N8M 38 N8M "HO3'" HO3* H 0 0 N N N -13.804 -7.304 4.031 2.813 -3.536 -0.960 HO3* N8M 39 N8M H9 H9 H 0 1 N N N -16.969 -4.081 1.083 0.246 0.756 -2.873 H9 N8M 40 N8M H9A H9A H 0 1 N N N -15.947 -3.196 2.266 -0.068 2.422 -2.330 H9A N8M 41 N8M H9B H9B H 0 1 N N N -15.738 -4.966 2.045 1.070 1.391 -1.429 H9B N8M 42 # 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 N8M N2 CG SING N N 1 N8M CG HG SING N N 2 N8M CG HGA SING N N 3 N8M CG HGB SING N N 4 N8M CE N2 SING N N 5 N8M N2 "C5'" SING N N 6 N8M CE HE SING N N 7 N8M CE HEA SING N N 8 N8M CE HEB SING N N 9 N8M "C4'" "C5'" SING N N 10 N8M "C5'" "H5'" SING N N 11 N8M "C5'" "H5'A" SING N N 12 N8M "O4'" "C4'" SING N N 13 N8M "C4'" "C3'" SING N N 14 N8M "C4'" "H4'" SING N N 15 N8M "C1'" "O4'" SING N N 16 N8M N9 "C1'" SING N N 17 N8M "C1'" "C2'" SING N N 18 N8M "C1'" "H1'" SING N N 19 N8M C8 N9 SING Y N 20 N8M N9 C4 SING Y N 21 N8M C5 C4 DOUB Y N 22 N8M C4 N3 SING Y N 23 N8M N3 C2 DOUB Y N 24 N8M N1 C2 SING Y N 25 N8M C2 H2 SING N N 26 N8M C6 N1 DOUB Y N 27 N8M C5 C6 SING Y N 28 N8M N6 C6 SING N N 29 N8M N6 HN6 SING N N 30 N8M N6 HN6A SING N N 31 N8M N7 C5 SING Y N 32 N8M C8 N7 DOUB Y N 33 N8M C9 C8 SING N N 34 N8M "O2'" "C2'" SING N N 35 N8M "C2'" "C3'" SING N N 36 N8M "C2'" "H2'" SING N N 37 N8M "O2'" "HO2'" SING N N 38 N8M "O3'" "C3'" SING N N 39 N8M "C3'" "H3'" SING N N 40 N8M "O3'" "HO3'" SING N N 41 N8M C9 H9 SING N N 42 N8M C9 H9A SING N N 43 N8M C9 H9B SING N N 44 # 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 N8M SMILES ACDLabs 10.04 "n2c1c(ncnc1n(c2C)C3OC(C(O)C3O)CN(C)C)N" N8M SMILES_CANONICAL CACTVS 3.341 "CN(C)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2c(C)nc3c(N)ncnc23" N8M SMILES CACTVS 3.341 "CN(C)C[CH]1O[CH]([CH](O)[CH]1O)n2c(C)nc3c(N)ncnc23" N8M SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1nc2c(ncnc2n1[C@H]3[C@@H]([C@@H]([C@H](O3)CN(C)C)O)O)N" N8M SMILES "OpenEye OEToolkits" 1.5.0 "Cc1nc2c(ncnc2n1C3C(C(C(O3)CN(C)C)O)O)N" N8M InChI InChI 1.03 "InChI=1S/C13H20N6O3/c1-6-17-8-11(14)15-5-16-12(8)19(6)13-10(21)9(20)7(22-13)4-18(2)3/h5,7,9-10,13,20-21H,4H2,1-3H3,(H2,14,15,16)/t7-,9-,10-,13-/m1/s1" N8M InChIKey InChI 1.03 BDRUNDKEQQVJJG-QYVSTXNMSA-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 N8M "SYSTEMATIC NAME" ACDLabs 10.04 "5'-deoxy-5'-(dimethylamino)-8-methyladenosine" N8M "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R,3R,4S,5R)-2-(6-amino-8-methyl-purin-9-yl)-5-(dimethylaminomethyl)oxolane-3,4-diol" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site N8M "Create component" 2009-04-15 RCSB N8M "Modify aromatic_flag" 2011-06-04 RCSB N8M "Modify descriptor" 2011-06-04 RCSB #