data_DLY # _chem_comp.id DLY _chem_comp.name D-LYSINE _chem_comp.type "D-PEPTIDE LINKING" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C6 H14 N2 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2023-11-03 _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 146.188 _chem_comp.one_letter_code K _chem_comp.three_letter_code DLY _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 1C4B _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.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 DLY N N N 0 1 N N N Y Y N 1.958 -1.185 0.419 1.770 0.232 -1.331 N DLY 1 DLY CA CA C 0 1 N N R Y N N 2.544 0.113 0.712 0.326 0.498 -1.348 CA DLY 2 DLY C C C 0 1 N N N Y N Y 1.902 1.172 -0.185 -0.271 -0.054 -2.616 C DLY 3 DLY O O O 0 1 N N N Y N Y 0.678 1.242 -0.292 0.220 -1.024 -3.143 O DLY 4 DLY CB CB C 0 1 N N N N N N 2.435 0.424 2.206 -0.329 -0.173 -0.140 CB DLY 5 DLY CG CG C 0 1 N N N N N N 2.618 -0.842 3.046 0.277 0.387 1.147 CG DLY 6 DLY CD CD C 0 1 N N N N N N 1.297 -1.601 3.190 -0.378 -0.283 2.355 CD DLY 7 DLY CE CE C 0 1 N N N N N N 1.544 -3.098 3.389 0.228 0.277 3.642 CE DLY 8 DLY NZ NZ N 0 1 N N N N N N 1.361 -3.467 4.810 -0.401 -0.367 4.802 NZ DLY 9 DLY OXT OXT O 0 1 N Y N Y N Y 2.756 1.971 -0.809 -1.350 0.530 -3.160 OXT DLY 10 DLY H H H 0 1 N N N Y Y N 0.978 -1.170 0.222 2.143 0.602 -2.193 H DLY 11 DLY H2 HN2 H 0 1 N Y N Y Y N 2.024 -1.424 -0.570 1.882 -0.769 -1.373 H2 DLY 12 DLY HA HA H 0 1 N N N Y N N 3.606 0.053 0.471 0.153 1.573 -1.304 HA DLY 13 DLY HB2 1HB H 0 1 N N N N N N 1.462 0.868 2.419 -0.157 -1.248 -0.184 HB2 DLY 14 DLY HB3 2HB H 0 1 N N N N N N 3.189 1.161 2.484 -1.401 0.023 -0.152 HB3 DLY 15 DLY HG2 1HG H 0 1 N N N N N N 2.999 -0.577 4.031 0.104 1.463 1.191 HG2 DLY 16 DLY HG3 2HG H 0 1 N N N N N N 3.363 -1.486 2.579 1.349 0.191 1.159 HG3 DLY 17 DLY HD2 1HD H 0 1 N N N N N N 0.685 -1.444 2.301 -0.206 -1.359 2.311 HD2 DLY 18 DLY HD3 2HD H 0 1 N N N N N N 0.737 -1.204 4.036 -1.450 -0.087 2.343 HD3 DLY 19 DLY HE2 1HE H 0 1 N N N N N N 2.554 -3.352 3.067 0.055 1.352 3.686 HE2 DLY 20 DLY HE3 2HE H 0 1 N N N N N N 0.857 -3.671 2.766 1.300 0.080 3.655 HE3 DLY 21 DLY HZ1 1HZ H 0 1 N N N N N N 0.413 -3.297 5.129 0.027 0.031 5.624 HZ1 DLY 22 DLY HZ2 2HZ H 0 1 N N N N N N 1.976 -2.941 5.422 -1.367 -0.074 4.808 HZ2 DLY 23 DLY HXT HXT H 0 1 N Y N Y N Y 2.357 2.628 -1.366 -1.734 0.175 -3.974 HXT DLY 24 # 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 DLY N CA SING N N 1 DLY N H SING N N 2 DLY N H2 SING N N 3 DLY CA C SING N N 4 DLY CA CB SING N N 5 DLY CA HA SING N N 6 DLY C O DOUB N N 7 DLY C OXT SING N N 8 DLY CB CG SING N N 9 DLY CB HB2 SING N N 10 DLY CB HB3 SING N N 11 DLY CG CD SING N N 12 DLY CG HG2 SING N N 13 DLY CG HG3 SING N N 14 DLY CD CE SING N N 15 DLY CD HD2 SING N N 16 DLY CD HD3 SING N N 17 DLY CE NZ SING N N 18 DLY CE HE2 SING N N 19 DLY CE HE3 SING N N 20 DLY NZ HZ1 SING N N 21 DLY NZ HZ2 SING N N 22 DLY OXT HXT SING N N 23 # 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 DLY SMILES ACDLabs 10.04 "O=C(O)C(N)CCCCN" DLY SMILES_CANONICAL CACTVS 3.341 "NCCCC[C@@H](N)C(O)=O" DLY SMILES CACTVS 3.341 "NCCCC[CH](N)C(O)=O" DLY SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C(CCN)C[C@H](C(=O)O)N" DLY SMILES "OpenEye OEToolkits" 1.5.0 "C(CCN)CC(C(=O)O)N" DLY InChI InChI 1.03 "InChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)/t5-/m1/s1" DLY InChIKey InChI 1.03 KDXKERNSBIXSRK-RXMQYKEDSA-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 DLY "SYSTEMATIC NAME" ACDLabs 10.04 D-lysine DLY "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R)-2,6-diaminohexanoic 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 DLY "Create component" 1999-07-08 RCSB DLY "Modify descriptor" 2011-06-04 RCSB DLY "Modify backbone" 2023-11-03 PDBE #