data_DNE # _chem_comp.id DNE _chem_comp.name D-NORLEUCINE _chem_comp.type "D-PEPTIDE LINKING" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C6 H13 N O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2003-11-14 _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 131.173 _chem_comp.one_letter_code L _chem_comp.three_letter_code DNE _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code ? _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 DNE N N N 0 1 N N N Y Y N 31.000 15.157 8.815 -0.718 1.770 0.275 N DNE 1 DNE CA CA C 0 1 N N R Y N N 29.604 15.535 8.503 -0.754 0.317 0.487 CA DNE 2 DNE C C C 0 1 N N N Y N Y 29.194 16.876 9.135 -2.071 -0.230 -0.001 C DNE 3 DNE O O O 0 1 N N N Y N Y 28.071 17.330 8.925 -2.736 0.406 -0.785 O DNE 4 DNE CB CB C 0 1 N N N N N N 29.414 15.569 6.980 0.390 -0.340 -0.288 CB DNE 5 DNE CG CG C 0 1 N N N N N N 29.620 14.191 6.335 1.729 0.121 0.291 CG DNE 6 DNE CD CD C 0 1 N N N N N N 29.498 14.247 4.806 2.872 -0.536 -0.484 CD DNE 7 DNE CE CE C 0 1 N N N N N N 28.071 14.548 4.338 4.212 -0.076 0.094 CE DNE 8 DNE OXT OXT O 0 1 N Y N Y N Y ? ? ? -2.506 -1.422 0.436 OXT DNE 9 DNE H H H 0 1 N N N Y Y N 31.214 14.281 8.382 -0.819 1.995 -0.704 H DNE 10 DNE H2 H2 H 0 1 N Y N Y Y N 31.621 15.860 8.469 -1.424 2.234 0.827 H2 DNE 11 DNE HA HA H 0 1 N N N Y N N 28.937 14.759 8.906 -0.643 0.103 1.550 HA DNE 12 DNE HB2 HB2 H 0 1 N N N N N N 28.393 15.914 6.759 0.311 -1.424 -0.203 HB2 DNE 13 DNE HB3 HB3 H 0 1 N N N N N N 30.141 16.273 6.549 0.329 -0.053 -1.338 HB3 DNE 14 DNE HG2 HG2 H 0 1 N N N N N N 30.622 13.822 6.598 1.808 1.205 0.206 HG2 DNE 15 DNE HG3 HG3 H 0 1 N N N N N N 28.860 13.499 6.727 1.789 -0.166 1.340 HG3 DNE 16 DNE HD2 HD2 H 0 1 N N N N N N 30.166 15.035 4.428 2.794 -1.620 -0.399 HD2 DNE 17 DNE HD3 HD3 H 0 1 N N N N N N 29.807 13.276 4.392 2.812 -0.249 -1.534 HD3 DNE 18 DNE HE1 HE1 H 0 1 N N N N N N 28.043 14.576 3.239 4.291 1.008 0.009 HE1 DNE 19 DNE HE2 HE2 H 0 1 N N N N N N 27.393 13.762 4.702 4.272 -0.363 1.144 HE2 DNE 20 DNE HE3 HE3 H 0 1 N N N N N N 27.752 15.522 4.738 5.027 -0.544 -0.458 HE3 DNE 21 DNE HXT HOXT H 0 0 N Y N Y N Y ? ? ? -3.356 -1.731 0.095 HOXT DNE 22 # 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 DNE N CA SING N N 1 DNE N H SING N N 2 DNE N H2 SING N N 3 DNE CA C SING N N 4 DNE CA CB SING N N 5 DNE CA HA SING N N 6 DNE C O DOUB N N 7 DNE C OXT SING N N 8 DNE CB CG SING N N 9 DNE CB HB2 SING N N 10 DNE CB HB3 SING N N 11 DNE CG CD SING N N 12 DNE CG HG2 SING N N 13 DNE CG HG3 SING N N 14 DNE CD CE SING N N 15 DNE CD HD2 SING N N 16 DNE CD HD3 SING N N 17 DNE CE HE1 SING N N 18 DNE CE HE2 SING N N 19 DNE CE HE3 SING N N 20 DNE OXT HXT SING N N 21 # 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 DNE SMILES ACDLabs 10.04 "O=C(O)C(N)CCCC" DNE InChI InChI 1.03 "InChI=1S/C6H13NO2/c1-2-3-4-5(7)6(8)9/h5H,2-4,7H2,1H3,(H,8,9)/t5-/m1/s1" DNE InChIKey InChI 1.03 LRQKBLKVPFOOQJ-RXMQYKEDSA-N DNE SMILES_CANONICAL CACTVS 3.385 "CCCC[C@@H](N)C(O)=O" DNE SMILES CACTVS 3.385 "CCCC[CH](N)C(O)=O" DNE SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CCCC[C@H](C(=O)O)N" DNE SMILES "OpenEye OEToolkits" 3.1.0.0 "CCCCC(C(=O)O)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 DNE "SYSTEMATIC NAME" ACDLabs 10.04 D-norleucine DNE "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "(2~{R})-2-azanylhexanoic 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 DNE "Create component" 2003-11-14 RCSB DNE "Modify descriptor" 2011-06-04 RCSB DNE "Other modification" 2022-01-10 PDBE DNE "Other modification" 2022-01-27 PDBE DNE "Modify backbone" 2023-11-03 PDBE DNE "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id DNE _pdbx_chem_comp_pcm.modified_residue_id DLE _pdbx_chem_comp_pcm.type Norleucine _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 ? #