data_AR3 # _chem_comp.id AR3 _chem_comp.name CYTARABINE _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H13 N3 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "1-BETA-D-ARABINOFURANOSYLCYTOSINE; ARA-C" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2003-04-29 _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 243.217 _chem_comp.one_letter_code ? _chem_comp.three_letter_code AR3 _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 1P5Z _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 AR3 "O5'" "O5'" O 0 1 N N N 69.603 37.846 20.126 2.451 -0.671 -3.603 "O5'" AR3 1 AR3 "C5'" "C5'" C 0 1 N N N 70.084 37.180 21.290 1.339 0.221 -3.527 "C5'" AR3 2 AR3 "C4'" "C4'" C 0 1 N N R 70.191 35.672 21.069 0.268 -0.373 -2.610 "C4'" AR3 3 AR3 "O4'" "O4'" O 0 1 N N N 68.908 35.015 20.820 0.789 -0.546 -1.274 "O4'" AR3 4 AR3 "C1'" "C1'" C 0 1 N N R 68.945 34.157 19.690 -0.372 -0.624 -0.420 "C1'" AR3 5 AR3 N1 N1 N 0 1 Y N N 67.581 34.094 19.091 -0.009 -0.311 0.963 N1 AR3 6 AR3 C6 C6 C 0 1 Y N N 66.781 35.110 19.044 1.077 0.469 1.219 C6 AR3 7 AR3 C5 C5 C 0 1 Y N N 65.581 35.014 18.562 1.399 0.757 2.503 C5 AR3 8 AR3 C4 C4 C 0 1 Y N N 65.145 33.836 18.102 0.605 0.228 3.541 C4 AR3 9 AR3 N3 N3 N 0 1 Y N N 65.955 32.800 18.065 -0.443 -0.527 3.244 N3 AR3 10 AR3 C2 C2 C 0 1 Y N N 67.182 32.939 18.562 -0.750 -0.796 1.976 C2 AR3 11 AR3 O2 O2 O 0 1 N N N 67.993 31.922 18.522 -1.720 -1.494 1.729 O2 AR3 12 AR3 N4 N4 N 0 1 N N N 63.889 33.644 17.594 0.912 0.500 4.854 N4 AR3 13 AR3 "C2'" "C2'" C 0 1 N N S 70.097 34.681 18.834 -1.345 0.438 -0.975 "C2'" AR3 14 AR3 O1 O1 O 0 1 N N N 69.589 35.628 17.902 -1.201 1.670 -0.265 O1 AR3 15 AR3 "C3'" "C3'" C 0 1 N N S 71.052 35.302 19.868 -0.912 0.609 -2.450 "C3'" AR3 16 AR3 "O3'" "O3'" O 0 1 N N N 72.081 34.348 20.236 -1.980 0.255 -3.330 "O3'" AR3 17 AR3 "H5'" "H5'" H 0 1 N N N 69.536 38.783 20.263 3.101 -0.259 -4.189 "H5'" AR3 18 AR3 "H5'1" "1H5'" H 0 0 N N N 71.052 37.611 21.635 0.923 0.369 -4.524 "H5'1" AR3 19 AR3 "H5'2" "2H5'" H 0 0 N N N 69.460 37.418 22.183 1.669 1.179 -3.126 "H5'2" AR3 20 AR3 "H4'" "H4'" H 0 1 N N N 70.641 35.324 22.028 -0.081 -1.326 -3.007 "H4'" AR3 21 AR3 "H1'" "H1'" H 0 1 N N N 69.166 33.082 19.886 -0.819 -1.616 -0.479 "H1'" AR3 22 AR3 H6 H6 H 0 1 N N N 67.131 36.084 19.425 1.673 0.859 0.407 H6 AR3 23 AR3 H5 H5 H 0 1 N N N 64.944 35.914 18.543 2.256 1.374 2.728 H5 AR3 24 AR3 HN41 1HN4 H 0 0 N N N 63.556 32.745 17.243 0.361 0.138 5.566 HN41 AR3 25 AR3 HN42 2HN4 H 0 0 N N N 63.755 34.328 16.849 1.682 1.050 5.068 HN42 AR3 26 AR3 "H2'" "H2'" H 0 1 N N N 70.618 33.909 18.220 -2.375 0.084 -0.918 "H2'" AR3 27 AR3 HO1 HO1 H 0 1 N N N 70.305 35.953 17.369 -1.785 2.310 -0.694 HO1 AR3 28 AR3 "H3'" "H3'" H 0 1 N N N 71.574 36.199 19.462 -0.586 1.631 -2.637 "H3'" AR3 29 AR3 H1 H1 H 0 1 N N N 72.617 34.117 19.487 -1.634 0.322 -4.231 H1 AR3 30 # # 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 AR3 "O5'" "C5'" SING N N 1 AR3 "O5'" "H5'" SING N N 2 AR3 "C5'" "C4'" SING N N 3 AR3 "C5'" "H5'1" SING N N 4 AR3 "C5'" "H5'2" SING N N 5 AR3 "C4'" "O4'" SING N N 6 AR3 "C4'" "C3'" SING N N 7 AR3 "C4'" "H4'" SING N N 8 AR3 "O4'" "C1'" SING N N 9 AR3 "C1'" N1 SING N N 10 AR3 "C1'" "C2'" SING N N 11 AR3 "C1'" "H1'" SING N N 12 AR3 N1 C6 SING Y N 13 AR3 N1 C2 SING Y N 14 AR3 C6 C5 DOUB Y N 15 AR3 C6 H6 SING N N 16 AR3 C5 C4 SING Y N 17 AR3 C5 H5 SING N N 18 AR3 C4 N3 DOUB Y N 19 AR3 C4 N4 SING N N 20 AR3 N3 C2 SING Y N 21 AR3 C2 O2 DOUB N N 22 AR3 N4 HN41 SING N N 23 AR3 N4 HN42 SING N N 24 AR3 "C2'" O1 SING N N 25 AR3 "C2'" "C3'" SING N N 26 AR3 "C2'" "H2'" SING N N 27 AR3 O1 HO1 SING N N 28 AR3 "C3'" "O3'" SING N N 29 AR3 "C3'" "H3'" SING N N 30 AR3 "O3'" H1 SING N N 31 # # 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 AR3 SMILES ACDLabs 10.04 "O=C1N=C(N)C=CN1C2OC(C(O)C2O)CO" AR3 SMILES_CANONICAL CACTVS 3.341 "NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO)[C@@H](O)[C@@H]2O" AR3 SMILES CACTVS 3.341 "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO)[CH](O)[CH]2O" AR3 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)N=C1N)[C@H]2[C@H]([C@@H]([C@H](O2)CO)O)O" AR3 SMILES "OpenEye OEToolkits" 1.5.0 "C1=CN(C(=O)N=C1N)C2C(C(C(O2)CO)O)O" AR3 InChI InChI 1.03 "InChI=1S/C9H13N3O5/c10-5-1-2-12(9(16)11-5)8-7(15)6(14)4(3-13)17-8/h1-2,4,6-8,13-15H,3H2,(H2,10,11,16)/t4-,6-,7+,8-/m1/s1" AR3 InChIKey InChI 1.03 UHDGCWIWMRVCDJ-CCXZUQQUSA-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 AR3 "SYSTEMATIC NAME" ACDLabs 10.04 "4-amino-1-beta-D-arabinofuranosylpyrimidin-2(1H)-one" AR3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "4-amino-1-[(2R,3S,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]pyrimidin-2-one" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site AR3 "Create component" 2003-04-29 RCSB AR3 "Modify descriptor" 2011-06-04 RCSB AR3 "Modify synonyms" 2020-06-05 PDBE # # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 AR3 1-BETA-D-ARABINOFURANOSYLCYTOSINE ? ? 2 AR3 ARA-C ? ? ##