data_D2T # _chem_comp.id D2T _chem_comp.name "(3R)-3-(methylsulfanyl)-L-aspartic acid" _chem_comp.type "L-peptide linking" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C5 H9 N O4 S" _chem_comp.mon_nstd_parent_comp_id ASP _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2015-03-02 _chem_comp.pdbx_modified_date 2024-09-27 _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 179.194 _chem_comp.one_letter_code ? _chem_comp.three_letter_code D2T _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 4YBB _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # 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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 D2T N N N 0 1 N N N Y Y N -97.656 16.767 -39.009 1.049 2.113 -0.067 N D2T 1 D2T CA CA C 0 1 N N R Y N N -98.427 16.428 -37.793 0.911 0.716 0.366 CA D2T 2 D2T C C C 0 1 N N N Y N Y -98.271 14.914 -37.482 2.125 -0.066 -0.064 C D2T 3 D2T O O O 0 1 N N N Y N Y -99.019 14.303 -36.742 2.830 0.352 -0.952 O D2T 4 D2T CB CB C 0 1 N N R N N N -99.933 16.834 -37.869 -0.340 0.106 -0.271 CB D2T 5 D2T CB1 CB1 C 0 1 N N N N N N -99.557 19.276 -36.426 -2.003 -2.172 -0.591 CB1 D2T 6 D2T SB SB S 0 1 N N N N N N -99.945 18.666 -38.090 -0.593 -1.569 0.377 SB D2T 7 D2T CG CG C 0 1 N N N N N N -100.604 16.053 -39.026 -1.538 0.959 0.058 CG D2T 8 D2T OD1 OD1 O 0 1 N N N N N N -99.862 15.422 -39.795 -1.569 1.582 1.093 OD1 D2T 9 D2T OD2 OD2 O 0 1 N N N N N N -101.849 16.118 -39.098 -2.569 1.026 -0.798 OD2 D2T 10 D2T OXT O1 O 0 1 N Y N Y N Y -97.235 14.345 -38.080 2.425 -1.227 0.540 O1 D2T 11 D2T H H1 H 0 1 N N N Y Y N -96.705 16.481 -38.892 1.832 2.557 0.390 H1 D2T 12 D2T H2 H2 H 0 1 N Y N Y Y N -98.052 16.295 -39.797 1.135 2.173 -1.071 H2 D2T 13 D2T HA H4 H 0 1 N N N Y N N -97.988 16.979 -36.948 0.820 0.679 1.452 H4 D2T 14 D2T H5 H5 H 0 1 N N N N N N -100.436 16.619 -36.915 -0.211 0.061 -1.353 H5 D2T 15 D2T H6 H6 H 0 1 N N N N N N -99.536 20.376 -36.434 -1.745 -2.168 -1.650 H6 D2T 16 D2T H7 H7 H 0 1 N N N N N N -100.326 18.929 -35.720 -2.249 -3.188 -0.281 H7 D2T 17 D2T H8 H8 H 0 1 N N N N N N -98.574 18.893 -36.115 -2.863 -1.524 -0.423 H8 D2T 18 D2T H9 H9 H 0 1 N N N N N N -102.151 15.606 -39.839 -3.315 1.586 -0.543 H9 D2T 19 D2T HXT H10 H 0 1 N Y N Y N Y -97.192 13.428 -37.835 3.214 -1.693 0.231 H10 D2T 20 # 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 D2T OD1 CG DOUB N N 1 D2T OD2 CG SING N N 2 D2T CG CB SING N N 3 D2T N CA SING N N 4 D2T SB CB SING N N 5 D2T SB CB1 SING N N 6 D2T CB CA SING N N 7 D2T CA C SING N N 8 D2T C O DOUB N N 9 D2T C OXT SING N N 10 D2T N H SING N N 11 D2T N H2 SING N N 12 D2T CA HA SING N N 13 D2T CB H5 SING N N 14 D2T CB1 H6 SING N N 15 D2T CB1 H7 SING N N 16 D2T CB1 H8 SING N N 17 D2T OD2 H9 SING N N 18 D2T OXT HXT SING N N 19 # 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 D2T SMILES ACDLabs 12.01 "NC(C(=O)O)C(SC)C(=O)O" D2T InChI InChI 1.03 "InChI=1S/C5H9NO4S/c1-11-3(5(9)10)2(6)4(7)8/h2-3H,6H2,1H3,(H,7,8)(H,9,10)/t2-,3+/m0/s1" D2T InChIKey InChI 1.03 AOSGDBLMPHPJQU-STHAYSLISA-N D2T SMILES_CANONICAL CACTVS 3.385 "CS[C@H]([C@H](N)C(O)=O)C(O)=O" D2T SMILES CACTVS 3.385 "CS[CH]([CH](N)C(O)=O)C(O)=O" D2T SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "CS[C@H]([C@@H](C(=O)O)N)C(=O)O" D2T SMILES "OpenEye OEToolkits" 1.9.2 "CSC(C(C(=O)O)N)C(=O)O" # 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 D2T "SYSTEMATIC NAME" ACDLabs 12.01 "(3R)-3-(methylsulfanyl)-L-aspartic acid" D2T "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "(2R,3R)-2-azanyl-3-methylsulfanyl-butanedioic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site D2T "Create component" 2015-03-02 RCSB D2T "Initial release" 2015-03-18 RCSB D2T "Modify backbone" 2023-11-03 PDBE D2T "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id D2T _pdbx_chem_comp_pcm.modified_residue_id ASP _pdbx_chem_comp_pcm.type Methylsulfanylation _pdbx_chem_comp_pcm.category "Named protein modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom ? _pdbx_chem_comp_pcm.modified_residue_id_linking_atom ? _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #