data_8AH # _chem_comp.id 8AH _chem_comp.name "5'-O-(dihydroxyphosphanyl)-2,8-dimethyladenosine" _chem_comp.type "RNA linking" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C12 H18 N5 O7 P" _chem_comp.mon_nstd_parent_comp_id A _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-02-26 _chem_comp.pdbx_modified_date 2021-12-10 _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 375.274 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 8AH _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 7LVK _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 8AH OP1 O1 O 0 1 N N N 221.780 219.856 210.066 -6.037 0.057 0.027 OP1 8AH 1 8AH P P1 P 0 1 N N N 222.272 218.668 209.340 -4.971 -0.889 0.427 P 8AH 2 8AH OP2 O2 O 0 1 N N N 223.533 219.024 208.626 -4.756 -1.979 -0.738 OP2 8AH 3 8AH "O5'" O3 O 0 1 N N N 221.088 217.992 208.396 -3.599 -0.081 0.666 "O5'" 8AH 4 8AH "C5'" C1 C 0 1 N N N 219.755 217.873 208.835 -3.014 0.769 -0.322 "C5'" 8AH 5 8AH "C4'" C2 C 0 1 N N R 218.850 218.837 208.124 -1.723 1.378 0.229 "C4'" 8AH 6 8AH "C3'" C3 C 0 1 N N S 219.130 220.040 208.549 -1.140 2.379 -0.788 "C3'" 8AH 7 8AH "O3'" O4 O 0 1 N N N 219.011 221.072 207.462 -1.057 3.685 -0.212 "O3'" 8AH 8 8AH "C2'" C4 C 0 1 N N R 218.084 220.314 209.616 0.275 1.831 -1.092 "C2'" 8AH 9 8AH "O2'" O5 O 0 1 N N N 217.779 221.634 209.717 1.227 2.893 -1.173 "O2'" 8AH 10 8AH "C1'" C5 C 0 1 N N R 216.854 219.543 209.090 0.548 0.934 0.142 "C1'" 8AH 11 8AH "O4'" O6 O 0 1 N N N 217.303 218.544 208.470 -0.740 0.347 0.424 "O4'" 8AH 12 8AH N9 N1 N 0 1 Y N N 216.020 218.991 210.166 1.528 -0.105 -0.182 N9 8AH 13 8AH C4 C6 C 0 1 Y N N 216.425 218.356 211.273 2.845 -0.129 0.204 C4 8AH 14 8AH C5 C7 C 0 1 Y N N 215.286 218.064 211.966 3.386 -1.307 -0.337 C5 8AH 15 8AH N7 N2 N 0 1 Y N N 214.259 218.459 211.224 2.391 -1.930 -1.013 N7 8AH 16 8AH C8 C8 C 0 1 Y N N 214.715 219.025 210.142 1.298 -1.229 -0.919 C8 8AH 17 8AH CM8 C9 C 0 1 N N N 213.881 219.661 209.035 -0.025 -1.603 -1.536 CM8 8AH 18 8AH N3 N3 N 0 1 Y N N 217.618 218.026 211.800 3.627 0.671 0.921 N3 8AH 19 8AH C2 C10 C 0 1 Y N N 217.688 217.384 212.944 4.891 0.368 1.124 C2 8AH 20 8AH CM2 C11 C 0 1 N N N 219.057 217.038 213.513 5.740 1.306 1.943 CM2 8AH 21 8AH N1 N4 N 0 1 Y N N 216.611 217.053 213.627 5.444 -0.728 0.636 N1 8AH 22 8AH C6 C12 C 0 1 Y N N 215.423 217.354 213.154 4.741 -1.588 -0.093 C6 8AH 23 8AH N6 N5 N 0 1 N N N 214.231 216.992 213.869 5.330 -2.733 -0.600 N6 8AH 24 8AH HOP2 H2 H 0 0 N N N 223.745 219.935 208.793 -4.070 -2.632 -0.544 HOP2 8AH 25 8AH "H5''" H3 H 0 0 N N N 219.716 218.077 209.915 -2.788 0.186 -1.215 "H5''" 8AH 26 8AH "H5'" H4 H 0 1 N N N 219.406 216.848 208.642 -3.713 1.566 -0.575 "H5'" 8AH 27 8AH "H4'" H5 H 0 1 N N N 218.983 218.732 207.037 -1.923 1.884 1.174 "H4'" 8AH 28 8AH "H3'" H6 H 0 1 N N N 220.131 220.102 209.001 -1.746 2.399 -1.694 "H3'" 8AH 29 8AH "HO3'" H7 H 0 0 N Y N 219.223 221.929 207.814 -0.697 4.355 -0.809 "HO3'" 8AH 30 8AH "H2'" H8 H 0 1 N N N 218.406 219.884 210.576 0.274 1.241 -2.010 "H2'" 8AH 31 8AH "HO2'" H9 H 0 0 N N N 217.124 221.757 210.394 1.046 3.532 -1.875 "HO2'" 8AH 32 8AH "H1'" H10 H 0 1 N N N 216.255 220.216 208.459 0.892 1.535 0.984 "H1'" 8AH 33 8AH HM82 H11 H 0 0 N N N 212.813 219.573 209.283 -0.088 -1.185 -2.540 HM82 8AH 34 8AH HM8 H12 H 0 1 N N N 214.149 220.724 208.939 -0.108 -2.689 -1.588 HM8 8AH 35 8AH HM81 H13 H 0 0 N N N 214.080 219.145 208.084 -0.836 -1.206 -0.925 HM81 8AH 36 8AH HM23 H14 H 0 0 N N N 219.840 217.403 212.833 5.685 1.021 2.994 HM23 8AH 37 8AH HM22 H15 H 0 0 N N N 219.176 217.514 214.498 6.774 1.249 1.605 HM22 8AH 38 8AH HM21 H16 H 0 0 N N N 219.144 215.947 213.620 5.374 2.325 1.824 HM21 8AH 39 8AH H61 H17 H 0 1 N N N 214.479 216.514 214.712 4.806 -3.353 -1.132 H61 8AH 40 8AH H62 H18 H 0 1 N N N 213.714 217.818 214.094 6.266 -2.916 -0.425 H62 8AH 41 8AH OP3 O7 O 0 1 N Y N 222.609 217.556 210.413 -5.398 -1.635 1.788 OP3 8AH 42 8AH HOP3 H20 H 0 0 N N N 222.424 217.889 211.283 -6.218 -2.143 1.717 HOP3 8AH 43 # # 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 8AH "O3'" "C3'" SING N N 1 8AH "C4'" "O4'" SING N N 2 8AH "C4'" "C3'" SING N N 3 8AH "C4'" "C5'" SING N N 4 8AH "O5'" "C5'" SING N N 5 8AH "O5'" P SING N N 6 8AH "O4'" "C1'" SING N N 7 8AH "C3'" "C2'" SING N N 8 8AH OP2 P SING N N 9 8AH CM8 C8 SING N N 10 8AH "C1'" "C2'" SING N N 11 8AH "C1'" N9 SING N N 12 8AH P OP1 DOUB N N 13 8AH "C2'" "O2'" SING N N 14 8AH C8 N9 SING Y N 15 8AH C8 N7 DOUB Y N 16 8AH N9 C4 SING Y N 17 8AH N7 C5 SING Y N 18 8AH C4 N3 DOUB Y N 19 8AH C4 C5 SING Y N 20 8AH N3 C2 SING Y N 21 8AH C5 C6 DOUB Y N 22 8AH C2 CM2 SING N N 23 8AH C2 N1 DOUB Y N 24 8AH C6 N1 SING Y N 25 8AH C6 N6 SING N N 26 8AH OP2 HOP2 SING N N 27 8AH "C5'" "H5''" SING N N 28 8AH "C5'" "H5'" SING N N 29 8AH "C4'" "H4'" SING N N 30 8AH "C3'" "H3'" SING N N 31 8AH "O3'" "HO3'" SING N N 32 8AH "C2'" "H2'" SING N N 33 8AH "O2'" "HO2'" SING N N 34 8AH "C1'" "H1'" SING N N 35 8AH CM8 HM82 SING N N 36 8AH CM8 HM8 SING N N 37 8AH CM8 HM81 SING N N 38 8AH CM2 HM23 SING N N 39 8AH CM2 HM22 SING N N 40 8AH CM2 HM21 SING N N 41 8AH N6 H61 SING N N 42 8AH N6 H62 SING N N 43 8AH P OP3 SING N N 44 8AH OP3 HOP3 SING N N 45 # # 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 8AH SMILES ACDLabs 12.01 "O=P(O)(O)OCC1OC(n2c(C)nc3c(N)nc(C)nc32)C(O)C1O" 8AH InChI InChI 1.03 "InChI=1S/C12H18N5O7P/c1-4-14-10(13)7-11(15-4)17(5(2)16-7)12-9(19)8(18)6(24-12)3-23-25(20,21)22/h6,8-9,12,18-19H,3H2,1-2H3,(H2,13,14,15)(H2,20,21,22)/t6-,8-,9-,12-/m1/s1" 8AH InChIKey InChI 1.03 YUHKBTJEYBIOJY-WOUKDFQISA-N 8AH SMILES_CANONICAL CACTVS 3.385 "Cc1nc(N)c2nc(C)n([C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O)c2n1" 8AH SMILES CACTVS 3.385 "Cc1nc(N)c2nc(C)n([CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O)c2n1" 8AH SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1nc(c2c(n1)n(c(n2)C)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O)N" 8AH SMILES "OpenEye OEToolkits" 2.0.7 "Cc1nc(c2c(n1)n(c(n2)C)C3C(C(C(O3)COP(=O)(O)O)O)O)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 8AH "SYSTEMATIC NAME" ACDLabs 12.01 "2,8-dimethyladenosine 5'-(dihydrogen phosphate)" 8AH "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{S},4~{R},5~{R})-5-(6-azanyl-2,8-dimethyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen 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 8AH "Create component" 2021-02-26 RCSB 8AH "Initial release" 2021-12-15 RCSB ##