data_C6D # _chem_comp.id C6D _chem_comp.name "N~5~-[N-(3-hydroxypropyl)carbamimidoyl]-L-ornithine" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H20 N4 O3" _chem_comp.mon_nstd_parent_comp_id ARG _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2017-09-13 _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 232.280 _chem_comp.one_letter_code ? _chem_comp.three_letter_code C6D _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 6AZK _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 C6D N N N 0 1 N N N Y Y N -28.513 35.798 -31.121 4.290 1.821 -0.439 N C6D 1 C6D CA CA C 0 1 N N S Y N N -28.428 35.652 -29.670 4.283 0.587 0.358 CA C6D 2 C6D C C C 0 1 N N N Y N Y -27.737 34.336 -29.315 5.576 -0.156 0.144 C C6D 3 C6D O O O 0 1 N N N Y N Y -28.080 33.692 -28.330 6.251 0.073 -0.832 O C6D 4 C6D CB CB C 0 1 N N N N N N -29.825 35.718 -29.014 3.110 -0.294 -0.076 CB C6D 5 C6D CG CG C 0 1 N N N N N N -30.617 36.967 -29.378 1.793 0.410 0.257 CG C6D 6 C6D CD CD C 0 1 N N N N N N -31.655 37.242 -28.315 0.620 -0.471 -0.177 CD C6D 7 C6D NE NE N 0 1 N N N N N N -32.472 38.399 -28.634 -0.641 0.204 0.141 NE C6D 8 C6D CZ CZ C 0 1 N N N N N N -33.499 38.788 -27.898 -1.839 -0.401 -0.159 CZ C6D 9 C6D NH1 NH1 N 0 1 N N N N N N -33.784 38.068 -26.824 -1.852 -1.574 -0.727 NH1 C6D 10 C6D NH2 NH2 N 0 1 N N N N N N -34.232 39.853 -28.204 -3.022 0.232 0.140 NH2 C6D 11 C6D C01 C01 C 0 1 N N N N N N -35.188 41.461 -29.706 -5.451 0.496 0.252 C01 C6D 12 C6D C02 C02 C 0 1 N N N N N N -33.955 40.667 -29.381 -4.298 -0.412 -0.180 C02 C6D 13 C6D C03 C03 C 0 1 N N N N N N -34.897 42.474 -30.770 -6.784 -0.177 -0.082 C03 C6D 14 C6D O2 O2 O 0 1 N N N N N N -35.047 43.753 -30.236 -7.860 0.672 0.322 O2 C6D 15 C6D H H1 H 0 1 N N N Y Y N -28.966 36.661 -31.344 5.017 2.448 -0.128 H1 C6D 16 C6D H2 H2 H 0 1 N Y N Y Y N -27.592 35.795 -31.511 4.386 1.616 -1.422 H2 C6D 17 C6D HA H4 H 0 1 N N N Y N N -27.824 36.476 -29.263 4.179 0.838 1.414 H4 C6D 18 C6D H6 H6 H 0 1 N N N N N N -30.400 34.837 -29.334 3.167 -0.471 -1.150 H6 C6D 19 C6D H7 H7 H 0 1 N N N N N N -29.697 35.695 -27.922 3.156 -1.246 0.452 H7 C6D 20 C6D H8 H8 H 0 1 N N N N N N -29.933 37.825 -29.451 1.737 0.587 1.331 H8 C6D 21 C6D H9 H9 H 0 1 N N N N N N -31.117 36.813 -30.346 1.747 1.363 -0.271 H9 C6D 22 C6D H10 H10 H 0 1 N N N N N N -32.308 36.362 -28.221 0.676 -0.648 -1.251 H10 C6D 23 C6D H11 H11 H 0 1 N N N N N N -31.143 37.422 -27.358 0.666 -1.423 0.351 H11 C6D 24 C6D H12 H12 H 0 1 N N N N N N -32.246 38.928 -29.452 -0.631 1.077 0.564 H12 C6D 25 C6D H13 H13 H 0 1 N N N N N N -34.573 38.431 -26.329 -2.697 -2.001 -0.939 H13 C6D 26 C6D H14 H14 H 0 1 N N N N N N -34.996 40.103 -27.609 -3.012 1.105 0.562 H14 C6D 27 C6D H15 H15 H 0 1 N N N N N N -35.534 41.978 -28.799 -5.392 0.672 1.326 H15 C6D 28 C6D H16 H16 H 0 1 N N N N N N -35.974 40.779 -30.062 -5.381 1.447 -0.276 H16 C6D 29 C6D H17 H17 H 0 1 N N N N N N -33.696 40.017 -30.230 -4.358 -0.588 -1.255 H17 C6D 30 C6D H18 H18 H 0 1 N N N N N N -33.117 41.349 -29.173 -4.368 -1.363 0.348 H18 C6D 31 C6D H19 H19 H 0 1 N N N N N N -35.598 42.340 -31.607 -6.843 -0.352 -1.156 H19 C6D 32 C6D H20 H20 H 0 1 N N N N N N -33.866 42.344 -31.130 -6.853 -1.128 0.446 H20 C6D 33 C6D H21 H21 H 0 1 N N N N N N -34.864 44.400 -30.907 -8.737 0.308 0.140 H21 C6D 34 C6D OXT O1 O 0 1 N Y N Y N Y -26.762 33.949 -30.124 5.979 -1.074 1.037 O1 C6D 35 C6D HXT H3 H 0 1 N Y N Y N Y -26.401 33.127 -29.814 6.815 -1.525 0.857 H3 C6D 36 # 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 C6D N CA SING N N 1 C6D C03 O2 SING N N 2 C6D C03 C01 SING N N 3 C6D C01 C02 SING N N 4 C6D CA C SING N N 5 C6D CA CB SING N N 6 C6D C02 NH2 SING N N 7 C6D CG CB SING N N 8 C6D CG CD SING N N 9 C6D C O DOUB N N 10 C6D NE CD SING N N 11 C6D NE CZ SING N N 12 C6D NH2 CZ SING N N 13 C6D CZ NH1 DOUB N N 14 C6D N H SING N N 15 C6D N H2 SING N N 16 C6D CA HA SING N N 17 C6D CB H6 SING N N 18 C6D CB H7 SING N N 19 C6D CG H8 SING N N 20 C6D CG H9 SING N N 21 C6D CD H10 SING N N 22 C6D CD H11 SING N N 23 C6D NE H12 SING N N 24 C6D NH1 H13 SING N N 25 C6D NH2 H14 SING N N 26 C6D C01 H15 SING N N 27 C6D C01 H16 SING N N 28 C6D C02 H17 SING N N 29 C6D C02 H18 SING N N 30 C6D C03 H19 SING N N 31 C6D C03 H20 SING N N 32 C6D O2 H21 SING N N 33 C6D C OXT SING N N 34 C6D OXT HXT SING N N 35 # 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 C6D SMILES ACDLabs 12.01 "NC(C(=O)O)CCCN\C(=N)NCCCO" C6D InChI InChI 1.03 "InChI=1S/C9H20N4O3/c10-7(8(15)16)3-1-4-12-9(11)13-5-2-6-14/h7,14H,1-6,10H2,(H,15,16)(H3,11,12,13)/t7-/m0/s1" C6D InChIKey InChI 1.03 YCHONDWDFOKMRR-ZETCQYMHSA-N C6D SMILES_CANONICAL CACTVS 3.385 "N[C@@H](CCCNC(=N)NCCCO)C(O)=O" C6D SMILES CACTVS 3.385 "N[CH](CCCNC(=N)NCCCO)C(O)=O" C6D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "[H]/N=C(\NCCC[C@@H](C(=O)O)N)/NCCCO" C6D SMILES "OpenEye OEToolkits" 2.0.6 "C(CC(C(=O)O)N)CNC(=N)NCCCO" # 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 C6D "SYSTEMATIC NAME" ACDLabs 12.01 "N~5~-[N-(3-hydroxypropyl)carbamimidoyl]-L-ornithine" C6D "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "(2~{S})-2-azanyl-5-[[~{N}-(3-oxidanylpropyl)carbamimidoyl]amino]pentanoic 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 C6D "Create component" 2017-09-13 RCSB C6D "Initial release" 2017-12-13 RCSB C6D "Modify backbone" 2023-11-03 PDBE #