data_A8M # _chem_comp.id A8M _chem_comp.name "5'-[(3-aminopropyl)(methyl)amino]-5'-deoxy-8-methyladenosine" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H25 N7 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2008-07-31 _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 351.404 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A8M _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 3DZ2 _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 A8M N1 N1 N 0 1 N N N -68.691 -5.857 10.961 -6.899 3.252 -0.523 N1 A8M 1 A8M C2 C2 C 0 1 N N N -69.263 -5.246 9.825 -6.336 2.162 0.285 C2 A8M 2 A8M C4 C4 C 0 1 N N N -68.191 -4.685 8.914 -5.187 1.502 -0.479 C4 A8M 3 A8M C5 C5 C 0 1 N N N -68.789 -4.029 7.709 -4.600 0.367 0.363 C5 A8M 4 A8M N2 N2 N 0 1 N N N -67.932 -4.042 6.576 -3.497 -0.267 -0.371 N2 A8M 5 A8M C6 C6 C 0 1 N N N -67.422 -5.421 6.370 -3.987 -0.944 -1.579 C6 A8M 6 A8M "C5'" "C5'" C 0 1 N N N -66.841 -3.144 6.755 -2.757 -1.198 0.492 "C5'" A8M 7 A8M "C4'" "C4'" C 0 1 N N R -65.924 -3.120 5.542 -1.479 -1.646 -0.220 "C4'" A8M 8 A8M "O4'" "O4'" O 0 1 N N N -66.592 -2.726 4.286 -0.586 -0.530 -0.369 "O4'" A8M 9 A8M "C1'" "C1'" C 0 1 N N R -66.181 -1.431 4.106 0.757 -1.046 -0.252 "C1'" A8M 10 A8M N5 N5 N 0 1 Y N N -67.438 -0.520 3.825 1.690 0.022 0.115 N5 A8M 11 A8M C11 C11 C 0 1 Y N N -68.565 -0.569 4.665 2.933 0.235 -0.426 C11 A8M 12 A8M N4 N4 N 0 1 Y N N -68.773 -1.332 5.771 3.665 -0.363 -1.360 N4 A8M 13 A8M C10 C10 C 0 1 Y N N -69.984 -1.102 6.321 4.862 0.093 -1.668 C10 A8M 14 A8M N3 N3 N 0 1 Y N N -70.947 -0.247 5.913 5.392 1.148 -1.078 N3 A8M 15 A8M C9 C9 C 0 1 Y N N -70.715 0.509 4.799 4.734 1.811 -0.132 C9 A8M 16 A8M N7 N7 N 0 1 N N N -71.666 1.357 4.390 5.299 2.917 0.481 N7 A8M 17 A8M C12 C12 C 0 1 Y N N -69.469 0.356 4.125 3.453 1.363 0.232 C12 A8M 18 A8M N6 N6 N 0 1 Y N N -68.947 0.962 2.998 2.518 1.773 1.122 N6 A8M 19 A8M C7 C7 C 0 1 Y N N -67.761 0.421 2.858 1.480 0.990 1.051 C7 A8M 20 A8M "C2'" "C2'" C 0 1 N N R -65.386 -0.920 5.092 0.646 -2.089 0.890 "C2'" A8M 21 A8M "O2'" "O2'" O 0 1 N N N -64.492 0.139 4.854 1.670 -3.079 0.778 "O2'" A8M 22 A8M "C3'" "C3'" C 0 1 N N S -64.749 -2.173 5.640 -0.750 -2.705 0.631 "C3'" A8M 23 A8M "O3'" "O3'" O 0 1 N N N -63.692 -2.581 4.763 -0.629 -3.931 -0.094 "O3'" A8M 24 A8M C8 C8 C 0 1 N N N -66.776 0.740 1.775 0.233 1.131 1.884 C8 A8M 25 A8M HN1 HN1 H 0 1 N N N -68.556 -6.832 10.783 -7.193 2.917 -1.428 HN1 A8M 26 A8M HN1A HN1A H 0 0 N N N -67.809 -5.429 11.161 -7.661 3.704 -0.039 HN1A A8M 27 A8M H2 H2 H 0 1 N N N -69.847 -5.996 9.271 -5.963 2.563 1.227 H2 A8M 28 A8M H2A H2A H 0 1 N N N -69.909 -4.420 10.158 -7.111 1.422 0.487 H2A A8M 29 A8M H4 H4 H 0 1 N N N -67.606 -3.939 9.471 -5.560 1.101 -1.421 H4 A8M 30 A8M H4A H4A H 0 1 N N N -67.552 -5.514 8.577 -4.412 2.242 -0.680 H4A A8M 31 A8M H5 H5 H 0 1 N N N -69.712 -4.567 7.448 -4.227 0.768 1.305 H5 A8M 32 A8M H5A H5A H 0 1 N N N -68.973 -2.976 7.968 -5.375 -0.373 0.564 H5A A8M 33 A8M H6 H6 H 0 1 N N N -67.296 -5.609 5.294 -4.470 -0.218 -2.232 H6 A8M 34 A8M H6A H6A H 0 1 N N N -66.453 -5.533 6.878 -3.150 -1.405 -2.103 H6A A8M 35 A8M H6B H6B H 0 1 N N N -68.140 -6.143 6.786 -4.707 -1.713 -1.297 H6B A8M 36 A8M "H5'" "H5'" H 0 1 N N N -67.240 -2.132 6.915 -2.498 -0.700 1.426 "H5'" A8M 37 A8M "H5'A" "H5'A" H 0 0 N N N -66.255 -3.485 7.621 -3.379 -2.068 0.704 "H5'A" A8M 38 A8M "H4'" "H4'" H 0 1 N N N -65.591 -4.168 5.528 -1.724 -2.058 -1.198 "H4'" A8M 39 A8M "H1'" "H1'" H 0 1 N N N -65.514 -1.440 3.231 1.068 -1.523 -1.181 "H1'" A8M 40 A8M H10 H10 H 0 1 N N N -70.214 -1.678 7.205 5.431 -0.417 -2.431 H10 A8M 41 A8M HN7 HN7 H 0 1 N N N -72.276 1.569 5.154 6.184 3.216 0.221 HN7 A8M 42 A8M HN7A HN7A H 0 0 N N N -71.241 2.200 4.060 4.809 3.392 1.170 HN7A A8M 43 A8M "H2'" "H2'" H 0 1 N N N -66.008 -0.330 5.782 0.682 -1.603 1.865 "H2'" A8M 44 A8M "HO2'" "HO2'" H 0 0 N N N -64.290 0.574 5.674 1.641 -3.754 1.470 "HO2'" A8M 45 A8M "H3'" "H3'" H 0 1 N N N -64.304 -2.095 6.643 -1.276 -2.868 1.571 "H3'" A8M 46 A8M "HO3'" "HO3'" H 0 0 N N N -64.030 -2.671 3.880 -0.178 -4.634 0.394 "HO3'" A8M 47 A8M H8 H8 H 0 1 N N N -67.302 0.818 0.812 0.344 0.558 2.805 H8 A8M 48 A8M H8A H8A H 0 1 N N N -66.280 1.696 2.000 0.075 2.182 2.127 H8A A8M 49 A8M H8B H8B H 0 1 N N N -66.023 -0.060 1.717 -0.623 0.756 1.323 H8B A8M 50 # 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 A8M N1 C2 SING N N 1 A8M C2 C4 SING N N 2 A8M C4 C5 SING N N 3 A8M C5 N2 SING N N 4 A8M N2 C6 SING N N 5 A8M N2 "C5'" SING N N 6 A8M "C5'" "C4'" SING N N 7 A8M "C4'" "O4'" SING N N 8 A8M "C4'" "C3'" SING N N 9 A8M "O4'" "C1'" SING N N 10 A8M "C1'" N5 SING N N 11 A8M "C1'" "C2'" SING N N 12 A8M N5 C11 SING Y N 13 A8M N5 C7 SING Y N 14 A8M C11 N4 DOUB Y N 15 A8M C11 C12 SING Y N 16 A8M N4 C10 SING Y N 17 A8M C10 N3 DOUB Y N 18 A8M N3 C9 SING Y N 19 A8M C9 N7 SING N N 20 A8M C9 C12 DOUB Y N 21 A8M C12 N6 SING Y N 22 A8M N6 C7 DOUB Y N 23 A8M C7 C8 SING N N 24 A8M "C2'" "O2'" SING N N 25 A8M "C2'" "C3'" SING N N 26 A8M "C3'" "O3'" SING N N 27 A8M N1 HN1 SING N N 28 A8M N1 HN1A SING N N 29 A8M C2 H2 SING N N 30 A8M C2 H2A SING N N 31 A8M C4 H4 SING N N 32 A8M C4 H4A SING N N 33 A8M C5 H5 SING N N 34 A8M C5 H5A SING N N 35 A8M C6 H6 SING N N 36 A8M C6 H6A SING N N 37 A8M C6 H6B SING N N 38 A8M "C5'" "H5'" SING N N 39 A8M "C5'" "H5'A" SING N N 40 A8M "C4'" "H4'" SING N N 41 A8M "C1'" "H1'" SING N N 42 A8M C10 H10 SING N N 43 A8M N7 HN7 SING N N 44 A8M N7 HN7A SING N N 45 A8M "C2'" "H2'" SING N N 46 A8M "O2'" "HO2'" SING N N 47 A8M "C3'" "H3'" SING N N 48 A8M "O3'" "HO3'" SING N N 49 A8M C8 H8 SING N N 50 A8M C8 H8A SING N N 51 A8M C8 H8B SING N N 52 # 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 A8M SMILES ACDLabs 10.04 "n2c1c(ncnc1n(c2C)C3OC(C(O)C3O)CN(CCCN)C)N" A8M SMILES_CANONICAL CACTVS 3.341 "CN(CCCN)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2c(C)nc3c(N)ncnc23" A8M SMILES CACTVS 3.341 "CN(CCCN)C[CH]1O[CH]([CH](O)[CH]1O)n2c(C)nc3c(N)ncnc23" A8M SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1nc2c(ncnc2n1[C@H]3[C@@H]([C@@H]([C@H](O3)C[N@@](C)CCCN)O)O)N" A8M SMILES "OpenEye OEToolkits" 1.5.0 "Cc1nc2c(ncnc2n1C3C(C(C(O3)CN(C)CCCN)O)O)N" A8M InChI InChI 1.03 "InChI=1S/C15H25N7O3/c1-8-20-10-13(17)18-7-19-14(10)22(8)15-12(24)11(23)9(25-15)6-21(2)5-3-4-16/h7,9,11-12,15,23-24H,3-6,16H2,1-2H3,(H2,17,18,19)/t9-,11-,12-,15-/m1/s1" A8M InChIKey InChI 1.03 PCQBSZQRAFEGGW-SDBHATRESA-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 A8M "SYSTEMATIC NAME" ACDLabs 10.04 "5'-[(3-aminopropyl)(methyl)amino]-5'-deoxy-8-methyladenosine" A8M "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R,3R,4S,5R)-2-(6-amino-8-methyl-purin-9-yl)-5-[(3-aminopropyl-methyl-amino)methyl]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 A8M "Create component" 2008-07-31 RCSB A8M "Modify aromatic_flag" 2011-06-04 RCSB A8M "Modify descriptor" 2011-06-04 RCSB #