data_ATM # _chem_comp.id ATM _chem_comp.name "3'-AZIDO-3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H14 N5 O7 P" _chem_comp.mon_nstd_parent_comp_id DT _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _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 347.221 _chem_comp.one_letter_code T _chem_comp.three_letter_code ATM _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 2TMK _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 ATM P P P 0 1 N N N 1.208 1.705 3.891 -4.092 1.481 0.053 P ATM 1 ATM OP1 O1P O 0 1 N N N 2.357 2.294 3.221 -3.578 1.972 1.351 OP1 ATM 2 ATM OP2 O2P O 0 1 N N N 0.095 1.187 3.081 -4.760 2.702 -0.757 OP2 ATM 3 ATM OP3 O3P O 0 1 N Y N 1.618 0.623 4.946 -5.198 0.339 0.311 OP3 ATM 4 ATM "O5'" O5* O 0 1 N N N 0.561 2.872 4.727 -2.878 0.867 -0.808 "O5'" ATM 5 ATM "C5'" C5* C 0 1 N N N 1.196 3.513 5.804 -2.254 -0.127 0.008 "C5'" ATM 6 ATM "C4'" C4* C 0 1 N N S 0.115 4.108 6.737 -1.085 -0.753 -0.755 "C4'" ATM 7 ATM "O4'" O4* O 0 1 N N N -0.544 5.281 6.249 0.006 0.187 -0.882 "O4'" ATM 8 ATM "C3'" C3* C 0 1 N N S -1.002 3.090 6.993 -0.468 -1.921 0.055 "C3'" ATM 9 ATM "N3'" N3* N 0 1 N N N -1.046 2.762 8.390 -1.181 -3.174 -0.205 "N3'" ATM 10 ATM "N4'" N4* N 1 1 N N N -0.854 1.711 9.004 -0.850 -4.124 0.295 "N4'" ATM 11 ATM "N5'" N5* N -1 1 N N N -0.678 0.782 9.556 -0.518 -5.074 0.796 "N5'" ATM 12 ATM "C2'" C2* C 0 1 N N N -2.289 3.765 6.629 0.973 -1.979 -0.507 "C2'" ATM 13 ATM "C1'" C1* C 0 1 N N R -1.887 5.221 6.721 1.194 -0.585 -1.125 "C1'" ATM 14 ATM N1 N1 N 0 1 N N N -2.740 6.042 5.874 2.347 0.063 -0.493 N1 ATM 15 ATM C2 C2 C 0 1 N N N -3.421 7.107 6.497 2.299 0.381 0.813 C2 ATM 16 ATM O2 O2 O 0 1 N N N -3.412 7.340 7.719 1.299 0.126 1.456 O2 ATM 17 ATM N3 N3 N 0 1 N N N -4.100 7.943 5.614 3.343 0.976 1.419 N3 ATM 18 ATM C4 C4 C 0 1 N N N -4.023 7.901 4.233 4.461 1.261 0.721 C4 ATM 19 ATM O4 O4 O 0 1 N N N -4.523 8.788 3.576 5.407 1.800 1.269 O4 ATM 20 ATM C5 C5 C 0 1 N N N -3.272 6.804 3.669 4.523 0.937 -0.655 C5 ATM 21 ATM C5A C5A C 0 1 N N N -3.048 6.791 2.179 5.759 1.248 -1.459 C5A ATM 22 ATM C6 C6 C 0 1 N N N -2.714 5.879 4.493 3.461 0.339 -1.237 C6 ATM 23 ATM HOP2 2HOP H 0 0 N N N -0.655 0.802 3.518 -5.481 3.040 -0.208 HOP2 ATM 24 ATM HOP3 3HOP H 0 0 N N N 0.867 0.238 5.383 -5.506 0.047 -0.558 HOP3 ATM 25 ATM "H5'" 1H5* H 0 1 N N N 1.901 2.839 6.344 -2.981 -0.900 0.258 "H5'" ATM 26 ATM "H5''" 2H5* H 0 0 N N N 1.936 4.276 5.468 -1.885 0.335 0.924 "H5''" ATM 27 ATM "H4'" H4* H 0 1 N N N 0.692 4.377 7.651 -1.410 -1.097 -1.737 "H4'" ATM 28 ATM "H3'" H3* H 0 1 N N N -0.833 2.159 6.401 -0.461 -1.694 1.121 "H3'" ATM 29 ATM "H2'" 1H2* H 0 1 N N N -2.736 3.451 5.656 1.054 -2.752 -1.271 "H2'" ATM 30 ATM "H2''" 2H2* H 0 0 N N N -3.173 3.472 7.241 1.689 -2.158 0.296 "H2''" ATM 31 ATM "H1'" H1* H 0 1 N N N -1.984 5.602 7.764 1.364 -0.678 -2.198 "H1'" ATM 32 ATM HN3 HN3 H 0 1 N N N -4.711 8.653 6.016 3.292 1.198 2.362 HN3 ATM 33 ATM H51 1H5 H 0 1 N N N -2.468 5.944 1.743 5.670 2.245 -1.891 H51 ATM 34 ATM H52 2H5 H 0 1 N N N -4.032 6.864 1.661 6.634 1.211 -0.809 H52 ATM 35 ATM H53 3H5 H 0 1 N N N -2.575 7.753 1.872 5.868 0.514 -2.257 H53 ATM 36 ATM H6 H6 H 0 1 N N N -2.238 4.993 4.039 3.491 0.081 -2.286 H6 ATM 37 # 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 ATM P OP1 DOUB N N 1 ATM P OP2 SING N N 2 ATM P OP3 SING N N 3 ATM P "O5'" SING N N 4 ATM OP2 HOP2 SING N N 5 ATM OP3 HOP3 SING N N 6 ATM "O5'" "C5'" SING N N 7 ATM "C5'" "C4'" SING N N 8 ATM "C5'" "H5'" SING N N 9 ATM "C5'" "H5''" SING N N 10 ATM "C4'" "O4'" SING N N 11 ATM "C4'" "C3'" SING N N 12 ATM "C4'" "H4'" SING N N 13 ATM "O4'" "C1'" SING N N 14 ATM "C3'" "N3'" SING N N 15 ATM "C3'" "C2'" SING N N 16 ATM "C3'" "H3'" SING N N 17 ATM "N3'" "N4'" DOUB N N 18 ATM "N4'" "N5'" DOUB N N 19 ATM "C2'" "C1'" SING N N 20 ATM "C2'" "H2'" SING N N 21 ATM "C2'" "H2''" SING N N 22 ATM "C1'" N1 SING N N 23 ATM "C1'" "H1'" SING N N 24 ATM N1 C2 SING N N 25 ATM N1 C6 SING N N 26 ATM C2 O2 DOUB N N 27 ATM C2 N3 SING N N 28 ATM N3 C4 SING N N 29 ATM N3 HN3 SING N N 30 ATM C4 O4 DOUB N N 31 ATM C4 C5 SING N N 32 ATM C5 C5A SING N N 33 ATM C5 C6 DOUB N N 34 ATM C5A H51 SING N N 35 ATM C5A H52 SING N N 36 ATM C5A H53 SING N N 37 ATM C6 H6 SING N N 38 # 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 ATM SMILES ACDLabs 10.04 "O=C1NC(=O)N(C=C1C)C2OC(C(\N=[N+]=[N-])C2)COP(=O)(O)O" ATM SMILES_CANONICAL CACTVS 3.341 "CC1=CN([C@H]2C[C@H](N=[N+]=[N-])[C@@H](CO[P](O)(O)=O)O2)C(=O)NC1=O" ATM SMILES CACTVS 3.341 "CC1=CN([CH]2C[CH](N=[N+]=[N-])[CH](CO[P](O)(O)=O)O2)C(=O)NC1=O" ATM SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)N=[N+]=[N-]" ATM SMILES "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(O)O)N=[N+]=[N-]" ATM InChI InChI 1.03 "InChI=1S/C10H14N5O7P/c1-5-3-15(10(17)12-9(5)16)8-2-6(13-14-11)7(22-8)4-21-23(18,19)20/h3,6-8H,2,4H2,1H3,(H,12,16,17)(H2,18,19,20)/t6-,7+,8+/m0/s1" ATM InChIKey InChI 1.03 OIFWQOKDSPDILA-XLPZGREQSA-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 ATM "SYSTEMATIC NAME" ACDLabs 10.04 ;3'-azido-3'-deoxythymidine 5'-(dihydrogen phosphate) ; ATM "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2S,3S,5R)-3-azido-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)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 ATM "Create component" 1999-07-08 EBI ATM "Modify descriptor" 2011-06-04 RCSB #