data_A5L # _chem_comp.id A5L _chem_comp.name "9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-9H-purin-6-amine" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C10 H13 F N5 O6 P" _chem_comp.mon_nstd_parent_comp_id DA _chem_comp.pdbx_synonyms "2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL ADENINE-5'-PHOSPHATE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-10-21 _chem_comp.pdbx_modified_date 2020-06-17 _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 349.212 _chem_comp.one_letter_code A _chem_comp.three_letter_code A5L _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 2KP4 _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 A5L F F F 0 1 N N N -2.145 -3.632 -7.778 1.606 2.099 -1.084 F A5L 1 A5L P P P 0 1 N N N -1.051 -6.695 -10.935 -4.857 -0.981 0.109 P A5L 2 A5L N1 N1 N 0 1 Y N N -3.076 -5.300 -1.249 5.779 -0.511 0.697 N1 A5L 3 A5L C2 C2 C 0 1 Y N N -4.087 -5.547 -2.069 5.150 0.388 1.432 C2 A5L 4 A5L N3 N3 N 0 1 Y N N -4.102 -5.460 -3.393 3.855 0.602 1.331 N3 A5L 5 A5L C4 C4 C 0 1 Y N N -2.894 -5.074 -3.891 3.118 -0.092 0.470 C4 A5L 6 A5L C5 C5 C 0 1 Y N N -1.763 -4.795 -3.171 3.741 -1.061 -0.335 C5 A5L 7 A5L C6 C6 C 0 1 Y N N -1.908 -4.928 -1.771 5.125 -1.253 -0.191 C6 A5L 8 A5L N6 N6 N 0 1 N N N -0.969 -4.662 -0.880 5.793 -2.193 -0.956 N6 A5L 9 A5L N7 N7 N 0 1 Y N N -0.719 -4.402 -4.009 2.778 -1.615 -1.110 N7 A5L 10 A5L C8 C8 C 0 1 Y N N -1.267 -4.440 -5.194 1.632 -1.060 -0.839 C8 A5L 11 A5L N9 N9 N 0 1 Y N N -2.588 -4.827 -5.211 1.789 -0.115 0.130 N9 A5L 12 A5L "C1'" "C1'" C 0 1 N N R -3.570 -4.896 -6.329 0.733 0.724 0.702 "C1'" A5L 13 A5L "C2'" "C2'" C 0 1 N N S -3.469 -3.845 -7.441 0.679 2.075 -0.036 "C2'" A5L 14 A5L "C3'" "C3'" C 0 1 N N R -4.206 -4.538 -8.595 -0.766 2.147 -0.590 "C3'" A5L 15 A5L "O3'" "O3'" O 0 1 N N N -5.607 -4.274 -8.702 -1.303 3.463 -0.443 "O3'" A5L 16 A5L "C4'" "C4'" C 0 1 N N R -3.984 -6.032 -8.312 -1.513 1.140 0.321 "C4'" A5L 17 A5L "O4'" "O4'" O 0 1 N N N -3.483 -6.159 -6.982 -0.544 0.087 0.530 "O4'" A5L 18 A5L "C5'" "C5'" C 0 1 N N N -3.133 -6.781 -9.343 -2.757 0.595 -0.384 "C5'" A5L 19 A5L "O5'" "O5'" O 0 1 N N N -2.064 -6.028 -9.881 -3.488 -0.238 0.517 "O5'" A5L 20 A5L OP1 OP1 O 0 1 N N N -1.745 -7.797 -11.633 -5.996 0.118 -0.189 OP1 A5L 21 A5L OP2 OP2 O 0 1 N N N -0.396 -5.613 -11.698 -4.632 -1.799 -1.104 OP2 A5L 22 A5L OP3 OP3 O 0 1 N Y N 0.044 -7.323 -9.930 -5.333 -1.933 1.317 OP3 A5L 23 A5L H2 H2 H 0 1 N N N -5.011 -5.857 -1.603 5.719 0.970 2.142 H2 A5L 24 A5L H8 H8 H 0 1 N N N -0.725 -4.187 -6.093 0.694 -1.312 -1.313 H8 A5L 25 A5L HN6 HN6 H 0 1 N N N -1.335 -4.798 0.041 6.749 -2.316 -0.848 HN6 A5L 26 A5L HN6A HN6A H 0 0 N N N -0.191 -5.274 -1.023 5.305 -2.728 -1.602 HN6A A5L 27 A5L "H5'" "H5'" H 0 1 N N N -2.706 -7.666 -8.848 -3.386 1.426 -0.703 "H5'" A5L 28 A5L "H5'A" "H5'A" H 0 0 N N N -3.791 -7.072 -10.175 -2.455 0.013 -1.254 "H5'A" A5L 29 A5L "H1'" "H1'" H 0 1 N N N -4.519 -4.709 -5.806 0.925 0.888 1.763 "H1'" A5L 30 A5L "H2'" "H2'" H 0 1 N N N -3.881 -2.862 -7.170 0.865 2.896 0.656 "H2'" A5L 31 A5L "H3'" "H3'" H 0 1 N N N -3.811 -4.165 -9.552 -0.799 1.828 -1.631 "H3'" A5L 32 A5L "H4'" "H4'" H 0 1 N N N -4.957 -6.536 -8.408 -1.781 1.605 1.270 "H4'" A5L 33 A5L "HO3'" "HO3'" H 0 0 N N N -5.963 -4.748 -9.444 -0.813 4.143 -0.924 "HO3'" A5L 34 A5L HOP1 HOP1 H 0 0 N N N -1.682 -7.667 -12.572 -6.195 0.691 0.564 HOP1 A5L 35 A5L HOP3 HOP3 H 0 0 N Y N 0.872 -6.869 -10.039 -6.153 -2.412 1.140 HOP3 A5L 36 # # 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 A5L F "C2'" SING N N 1 A5L OP2 P DOUB N N 2 A5L OP1 P SING N N 3 A5L P OP3 SING N N 4 A5L P "O5'" SING N N 5 A5L C2 N1 DOUB Y N 6 A5L C6 N1 SING Y N 7 A5L N3 C2 SING Y N 8 A5L C2 H2 SING N N 9 A5L C4 N3 DOUB Y N 10 A5L N9 C4 SING Y N 11 A5L C4 C5 SING Y N 12 A5L N7 C5 SING Y N 13 A5L C5 C6 DOUB Y N 14 A5L C6 N6 SING N N 15 A5L HN6 N6 SING N N 16 A5L N6 HN6A SING N N 17 A5L C8 N7 DOUB Y N 18 A5L H8 C8 SING N N 19 A5L N9 C8 SING Y N 20 A5L "C1'" N9 SING N N 21 A5L "C2'" "C1'" SING N N 22 A5L "O4'" "C1'" SING N N 23 A5L "C1'" "H1'" SING N N 24 A5L "C3'" "C2'" SING N N 25 A5L "C2'" "H2'" SING N N 26 A5L "H3'" "C3'" SING N N 27 A5L "O3'" "C3'" SING N N 28 A5L "C3'" "C4'" SING N N 29 A5L "O3'" "HO3'" SING N N 30 A5L "C5'" "C4'" SING N N 31 A5L "H4'" "C4'" SING N N 32 A5L "C4'" "O4'" SING N N 33 A5L "H5'" "C5'" SING N N 34 A5L "O5'" "C5'" SING N N 35 A5L "C5'" "H5'A" SING N N 36 A5L OP1 HOP1 SING N N 37 A5L OP3 HOP3 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 A5L SMILES ACDLabs 11.02 "O=P(O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(F)C3O" A5L SMILES_CANONICAL CACTVS 3.352 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]3F" A5L SMILES CACTVS 3.352 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3F" A5L SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "c1nc(c2c(n1)n(cn2)[C@H]3[C@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)F)N" A5L SMILES "OpenEye OEToolkits" 1.7.0 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)O)O)F)N" A5L InChI InChI 1.03 "InChI=1S/C10H13FN5O6P/c11-5-7(17)4(1-21-23(18,19)20)22-10(5)16-3-15-6-8(12)13-2-14-9(6)16/h2-5,7,10,17H,1H2,(H2,12,13,14)(H2,18,19,20)/t4-,5+,7-,10-/m1/s1" A5L InChIKey InChI 1.03 WMEBOUQKZKATDW-GQTRHBFLSA-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 A5L "SYSTEMATIC NAME" ACDLabs 11.02 "9-(2-deoxy-2-fluoro-5-O-phosphono-beta-D-arabinofuranosyl)-9H-purin-6-amine" A5L "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "[(2R,3R,4S,5R)-5-(6-aminopurin-9-yl)-4-fluoro-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 A5L "Create component" 2009-10-21 RCSB A5L "Modify aromatic_flag" 2011-06-04 RCSB A5L "Modify descriptor" 2011-06-04 RCSB A5L "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A5L _pdbx_chem_comp_synonyms.name "2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL ADENINE-5'-PHOSPHATE" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##