data_SEN # _chem_comp.id SEN _chem_comp.name "O-[N,N-dimethylphosphoramidate]-L-serine" _chem_comp.type "L-peptide linking" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C5 H13 N2 O5 P" _chem_comp.mon_nstd_parent_comp_id SER _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2008-06-27 _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 212.141 _chem_comp.one_letter_code S _chem_comp.three_letter_code SEN _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 3DKK _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm N # 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 SEN N N N 0 1 N N N N N N 31.897 17.044 22.582 2.108 -1.861 -0.082 N SEN 1 SEN CA CA C 0 1 N N S N N N 33.138 16.242 22.514 2.200 -0.456 -0.503 CA SEN 2 SEN C C C 0 1 N N N N N N 33.183 15.149 23.635 3.521 0.116 -0.059 C SEN 3 SEN O O O 0 1 N N N N N N 32.269 14.337 23.714 4.142 -0.417 0.830 O SEN 4 SEN CB CB C 0 1 N N N N N N 34.324 17.212 22.557 1.059 0.342 0.132 CB SEN 5 SEN OG OG O 0 1 N N N N N N 35.528 16.629 22.110 -0.191 -0.125 -0.379 OG SEN 6 SEN P P P 0 1 N N S N N N 36.912 16.674 22.957 -1.612 0.424 0.143 P SEN 7 SEN O2 O2 O 0 1 N N N N N N 36.577 16.278 24.453 -1.749 1.987 -0.218 O2 SEN 8 SEN O3 O3 O 0 1 N N N N N N 37.492 17.981 22.685 -1.700 0.246 1.610 O3 SEN 9 SEN N1 N1 N 0 1 N N N N N N 38.015 15.477 22.483 -2.853 -0.435 -0.602 N1 SEN 10 SEN C1 C1 C 0 1 N N N N N N 38.802 15.979 21.359 -2.714 -1.878 -0.360 C1 SEN 11 SEN C2 C2 C 0 1 N N N N N N 37.415 14.185 22.225 -4.167 0.048 -0.159 C2 SEN 12 SEN OXT OXT O 0 1 N Y N N N N 34.176 15.081 24.533 4.008 1.218 -0.650 OXT SEN 13 SEN H H H 0 1 N N N N N N 31.669 17.225 23.539 2.175 -1.942 0.922 H SEN 14 SEN HN2 HN2 H 0 1 N Y N N N N 32.034 17.911 22.102 1.259 -2.286 -0.423 HN2 SEN 15 SEN HA HA H 0 1 N N N N N N 33.181 15.674 21.573 2.125 -0.397 -1.589 HA SEN 16 SEN HB HB H 0 1 N N N N N N 34.093 18.070 21.908 1.082 0.210 1.214 HB SEN 17 SEN HBA HBA H 0 1 N N N N N N 34.470 17.511 23.606 1.178 1.399 -0.108 HBA SEN 18 SEN HO2 HO2 H 0 1 N N N N N N 36.510 15.333 24.523 -1.700 2.178 -1.164 HO2 SEN 19 SEN H1 H1 H 0 1 N N N N N N 38.150 16.105 20.482 -2.726 -2.069 0.713 H1 SEN 20 SEN H1A H1A H 0 1 N N N N N N 39.247 16.948 21.627 -3.541 -2.407 -0.834 H1A SEN 21 SEN H1B H1B H 0 1 N N N N N N 39.601 15.261 21.122 -1.771 -2.227 -0.781 H1B SEN 22 SEN H2 H2 H 0 1 N N N N N N 37.263 14.060 21.143 -4.271 1.103 -0.412 H2 SEN 23 SEN H2A H2A H 0 1 N N N N N N 38.081 13.391 22.595 -4.951 -0.524 -0.655 H2A SEN 24 SEN H2B H2B H 0 1 N N N N N N 36.446 14.122 22.741 -4.255 -0.076 0.921 H2B SEN 25 SEN HXT HXT H 0 1 N Y N N N N 34.010 14.366 25.136 4.859 1.548 -0.331 HXT SEN 26 # 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 SEN CA N SING N N 1 SEN N H SING N N 2 SEN N HN2 SING N N 3 SEN CA CB SING N N 4 SEN CA C SING N N 5 SEN CA HA SING N N 6 SEN C O DOUB N N 7 SEN C OXT SING N N 8 SEN OG CB SING N N 9 SEN CB HB SING N N 10 SEN CB HBA SING N N 11 SEN OG P SING N N 12 SEN N1 P SING N N 13 SEN O3 P DOUB N N 14 SEN P O2 SING N N 15 SEN O2 HO2 SING N N 16 SEN C1 N1 SING N N 17 SEN C2 N1 SING N N 18 SEN C1 H1 SING N N 19 SEN C1 H1A SING N N 20 SEN C1 H1B SING N N 21 SEN C2 H2 SING N N 22 SEN C2 H2A SING N N 23 SEN C2 H2B SING N N 24 SEN OXT HXT SING N N 25 # 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 SEN SMILES ACDLabs 10.04 "O=P(O)(OCC(N)C(=O)O)N(C)C" SEN SMILES_CANONICAL CACTVS 3.341 "CN(C)[P@@](O)(=O)OC[C@H](N)C(O)=O" SEN SMILES CACTVS 3.341 "CN(C)[P](O)(=O)OC[CH](N)C(O)=O" SEN SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CN(C)[P@](=O)(O)OC[C@@H](C(=O)O)N" SEN SMILES "OpenEye OEToolkits" 1.5.0 "CN(C)P(=O)(O)OCC(C(=O)O)N" SEN InChI InChI 1.03 "InChI=1S/C5H13N2O5P/c1-7(2)13(10,11)12-3-4(6)5(8)9/h4H,3,6H2,1-2H3,(H,8,9)(H,10,11)/t4-/m0/s1" SEN InChIKey InChI 1.03 HTPIRKVMFNYAHI-BYPYZUCNSA-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 SEN "SYSTEMATIC NAME" ACDLabs 10.04 "O-[(S)-(dimethylamino)(hydroxy)phosphoryl]-L-serine" SEN "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S)-2-amino-3-(dimethylamino-hydroxy-phosphoryl)oxy-propanoic 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 SEN "Create component" 2008-06-27 RCSB SEN "Modify descriptor" 2011-06-04 RCSB SEN "Modify PCM" 2024-09-27 PDBE #