data_64P # _chem_comp.id 64P _chem_comp.name "5-aminothymidine 5'-(dihydrogen phosphate)" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H18 N3 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-03-04 _chem_comp.pdbx_modified_date 2019-07-24 _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 339.239 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 64P _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 ? _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 64P P P P 0 1 N N N 3.902 -18.960 -0.361 -4.256 1.156 0.009 P 64P 1 64P OP2 OP2 O 0 1 N N N 3.214 -17.845 -1.011 -5.387 0.269 0.363 OP2 64P 2 64P OP1 OP1 O 0 1 N N N 5.330 -19.180 -0.787 -3.805 1.993 1.308 OP1 64P 3 64P "O5'" "O5'" O 0 1 N N N 3.877 -18.715 1.208 -3.020 0.267 -0.512 "O5'" 64P 4 64P "C5'" "C5'" C 0 1 N N N 2.604 -18.643 1.814 -2.453 -0.801 0.249 "C5'" 64P 5 64P "C4'" "C4'" C 0 1 N N R 2.701 -18.768 3.324 -1.301 -1.432 -0.536 "C4'" 64P 6 64P "O4'" "O4'" O 0 1 N N N 3.243 -17.549 3.841 -0.209 -0.498 -0.675 "O4'" 64P 7 64P "C3'" "C3'" C 0 1 N N S 1.370 -18.895 4.067 -0.674 -2.604 0.262 "C3'" 64P 8 64P "O3'" "O3'" O 0 1 N N N 0.920 -20.222 4.056 -1.379 -3.823 0.015 "O3'" 64P 9 64P "C2'" "C2'" C 0 1 N N N 1.771 -18.459 5.460 0.757 -2.666 -0.324 "C2'" 64P 10 64P "C1'" "C1'" C 0 1 N N R 2.834 -17.398 5.187 0.973 -1.271 -0.942 "C1'" 64P 11 64P N1 N1 N 0 1 N N N 2.454 -15.927 5.409 2.138 -0.629 -0.327 N1 64P 12 64P C2 C2 C 0 1 N N N 3.192 -15.253 6.256 2.112 -0.323 0.980 C2 64P 13 64P O2 O2 O 0 1 N N N 4.121 -15.745 6.909 1.165 -0.679 1.654 O2 64P 14 64P N3 N3 N 0 1 N N N 2.903 -13.901 6.476 3.108 0.366 1.561 N3 64P 15 64P C4 C4 C 0 1 N N N 1.879 -13.172 5.848 4.049 0.981 0.821 C4 64P 16 64P O4 O4 O 0 1 N N N 1.685 -11.983 6.111 4.984 1.530 1.363 O4 64P 17 64P C5 C5 C 0 1 N N R 1.290 -13.840 4.627 3.938 0.988 -0.683 C5 64P 18 64P C5M C5M C 0 1 N N N 2.242 -13.500 3.476 5.332 1.137 -1.297 C5M 64P 19 64P C6 C6 C 0 1 N N N 1.161 -15.388 4.851 3.315 -0.334 -1.146 C6 64P 20 64P N5 N5 N 0 1 N N N -0.083 -13.413 4.432 3.092 2.111 -1.108 N5 64P 21 64P "H5'" "H5'" H 0 1 N N N 2.147 -17.673 1.567 -2.078 -0.413 1.196 "H5'" 64P 22 64P "H5'A" "H5'A" H 0 0 N N N 1.992 -19.475 1.435 -3.216 -1.555 0.442 "H5'A" 64P 23 64P "H4'" "H4'" H 0 1 N N N 3.296 -19.680 3.482 -1.644 -1.770 -1.514 "H4'" 64P 24 64P "H3'" "H3'" H 0 1 N N N 0.544 -18.311 3.634 -0.650 -2.380 1.328 "H3'" 64P 25 64P "HO3'" "HO3'" H 0 0 N Y N 0.818 -20.515 3.158 -1.024 -4.586 0.492 "HO3'" 64P 26 64P "H2'" "H2'" H 0 1 N N N 0.918 -18.048 6.021 1.485 -2.850 0.467 "H2'" 64P 27 64P "H2'A" "H2'A" H 0 0 N N N 2.136 -19.287 6.085 0.823 -3.438 -1.091 "H2'A" 64P 28 64P "H1'" "H1'" H 0 1 N N N 3.616 -17.585 5.937 1.122 -1.362 -2.018 "H1'" 64P 29 64P HN3 HN3 H 0 1 N N N 3.474 -13.413 7.136 3.150 0.420 2.529 HN3 64P 30 64P H5M H5M H 0 1 N N N 1.671 -13.419 2.539 5.958 0.303 -0.983 H5M 64P 31 64P H5MA H5MA H 0 0 N N N 2.742 -12.543 3.685 5.251 1.142 -2.384 H5MA 64P 32 64P H5MB H5MB H 0 0 N N N 2.996 -14.295 3.377 5.778 2.073 -0.961 H5MB 64P 33 64P H6 H6 H 0 1 N N N 0.943 -15.880 3.892 4.042 -1.139 -1.039 H6 64P 34 64P H6A H6A H 0 1 N N N 0.345 -15.588 5.561 3.019 -0.249 -2.192 H6A 64P 35 64P HN5 HN5 H 0 1 N N N -0.531 -13.315 5.320 3.483 2.992 -0.808 HN5 64P 36 64P HN5A HN5A H 0 0 N N N -0.094 -12.535 3.954 2.950 2.099 -2.107 HN5A 64P 37 64P OP3 OP3 O 0 1 N Y N 2.873 -20.208 -0.515 -4.714 2.173 -1.152 OP3 64P 38 64P H1P H1P H 0 1 N N N 5.375 -19.226 -1.735 -3.066 2.597 1.150 H1P 64P 39 64P H3P H3P H 0 1 N Y N 2.672 -20.342 -1.434 -5.456 2.741 -0.907 H3P 64P 40 # # 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 64P P OP2 DOUB N N 1 64P P OP1 SING N N 2 64P P "O5'" SING N N 3 64P "O5'" "C5'" SING N N 4 64P "C5'" "C4'" SING N N 5 64P "C4'" "O4'" SING N N 6 64P "C4'" "C3'" SING N N 7 64P "O4'" "C1'" SING N N 8 64P "C3'" "O3'" SING N N 9 64P "C3'" "C2'" SING N N 10 64P "C2'" "C1'" SING N N 11 64P "C1'" N1 SING N N 12 64P N1 C2 SING N N 13 64P N1 C6 SING N N 14 64P C2 O2 DOUB N N 15 64P C2 N3 SING N N 16 64P N3 C4 SING N N 17 64P C4 O4 DOUB N N 18 64P C4 C5 SING N N 19 64P C5 C5M SING N N 20 64P C5 C6 SING N N 21 64P C5 N5 SING N N 22 64P "C5'" "H5'" SING N N 23 64P "C5'" "H5'A" SING N N 24 64P "C4'" "H4'" SING N N 25 64P "C3'" "H3'" SING N N 26 64P "O3'" "HO3'" SING N N 27 64P "C2'" "H2'" SING N N 28 64P "C2'" "H2'A" SING N N 29 64P "C1'" "H1'" SING N N 30 64P N3 HN3 SING N N 31 64P C5M H5M SING N N 32 64P C5M H5MA SING N N 33 64P C5M H5MB SING N N 34 64P C6 H6 SING N N 35 64P C6 H6A SING N N 36 64P N5 HN5 SING N N 37 64P N5 HN5A SING N N 38 64P P OP3 SING N N 39 64P OP3 H3P SING N N 40 64P OP1 H1P SING N N 41 # # 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 64P SMILES ACDLabs 10.04 "O=C1N(CC(C(=O)N1)(N)C)C2OC(C(O)C2)COP(=O)(O)O" 64P SMILES_CANONICAL CACTVS 3.352 "C[C@@]1(N)CN([C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C(=O)NC1=O" 64P SMILES CACTVS 3.352 "C[C]1(N)CN([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C(=O)NC1=O" 64P SMILES_CANONICAL "OpenEye OEToolkits" 1.6.1 "C[C@]1(CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)N" 64P SMILES "OpenEye OEToolkits" 1.6.1 "CC1(CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(O)O)O)N" 64P InChI InChI 1.03 "InChI=1S/C10H18N3O8P/c1-10(11)4-13(9(16)12-8(10)15)7-2-5(14)6(21-7)3-20-22(17,18)19/h5-7,14H,2-4,11H2,1H3,(H,12,15,16)(H2,17,18,19)/t5-,6+,7+,10+/m0/s1" 64P InChIKey InChI 1.03 ZCRHNITTYCCJRU-MPXCPUAZSA-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 64P "SYSTEMATIC NAME" ACDLabs 10.04 "5-aminothymidine 5'-(dihydrogen phosphate)" 64P "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "[(2R,3S,5R)-5-[(5R)-5-amino-5-methyl-2,4-dioxo-1,3-diazinan-1-yl]-3-hydroxy-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 64P "Create component" 2009-03-04 EBI 64P "Modify descriptor" 2011-06-04 RCSB 64P "Modify linking type" 2019-07-24 RCSB ##