data_YYA # _chem_comp.id YYA _chem_comp.name "2,4,5-trideoxy-2-(methylamino)-4-[(2Z)-penta-2,4-dien-1-yl]-L-xylonic acid" _chem_comp.type "L-PEPTIDE LINKING" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C11 H19 N O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2010-11-19 _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 213.273 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YYA _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 3ODL _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 YYA C C C 0 1 N N N Y N Y 59.116 -3.657 37.768 3.006 -0.647 0.222 C YYA 1 YYA N N N 0 1 N N N Y Y N 57.311 -3.191 36.137 1.684 0.669 -1.336 N YYA 2 YYA O O O 0 1 N N N Y N Y 59.738 -4.222 36.868 3.576 -1.055 -0.762 O YYA 3 YYA CA CA C 0 1 N N S Y N N 57.717 -3.141 37.540 1.885 0.351 0.084 CA YYA 4 YYA CB CB C 0 1 N N R N N N 56.703 -3.735 38.544 0.599 -0.244 0.660 CB YYA 5 YYA CE CE C 0 1 N N N N N N 54.655 -2.829 40.797 -3.018 1.007 0.631 CE YYA 6 YYA CH CH C 0 1 N N N N N N 54.257 -4.666 42.403 -4.061 -0.906 -0.436 CH YYA 7 YYA CN CN C 0 1 N N N N N N 57.070 -4.494 35.512 2.599 1.732 -1.773 CN YYA 8 YYA CT CT C 0 1 N N N N N N 54.229 -5.017 43.686 -5.075 -1.388 -1.146 CT YYA 9 YYA CZ CZ C 0 1 N N N N N N 54.611 -3.284 42.051 -4.075 0.497 0.008 CZ YYA 10 YYA CD1 CD1 C 0 1 N N N N N N 55.192 -1.677 38.243 -0.275 2.057 1.086 CD1 YYA 11 YYA CD2 CD2 C 0 1 N N N N N N 54.366 -3.660 39.561 -1.851 0.121 0.985 CD2 YYA 12 YYA OG1 OG1 O 0 1 N N N N N N 56.741 -5.149 38.482 0.328 -1.497 0.027 OG1 YYA 13 YYA CG2 CG2 C 0 1 N N R N N N 55.262 -3.200 38.404 -0.565 0.716 0.409 CG2 YYA 14 YYA OXT OXT O 0 1 N Y N Y N Y 59.729 -3.487 39.049 3.368 -1.085 1.438 O3 YYA 15 YYA H H1 H 0 1 N Y N Y Y N 56.451 -2.684 36.074 1.788 -0.155 -1.909 H1 YYA 16 YYA HA HA H 0 1 N N N Y N N 57.726 -2.064 37.766 2.140 1.261 0.627 HA YYA 17 YYA HB HB H 0 1 N N N N N N 57.022 -3.395 39.540 0.718 -0.397 1.733 HB YYA 18 YYA HE HE H 0 1 N N N N N N 54.916 -1.791 40.651 -2.994 2.057 0.883 HE YYA 19 YYA HH HH H 0 1 N N N N N N 54.023 -5.386 41.632 -3.226 -1.543 -0.184 HH YYA 20 YYA HN HN H 0 1 N N N N N N 56.775 -4.349 34.462 2.430 1.947 -2.828 HN YYA 21 YYA HNA HNA H 0 1 N N N N N N 57.989 -5.096 35.554 2.418 2.631 -1.184 HNA YYA 22 YYA H8 H8 H 0 1 N N N N N N 56.265 -5.015 36.050 3.630 1.405 -1.630 H8 YYA 23 YYA HT HT H 0 1 N N N N N N 53.971 -6.028 43.964 -5.065 -2.418 -1.471 HT YYA 24 YYA HTA HTA H 0 1 N N N N N N 54.464 -4.291 44.450 -5.909 -0.750 -1.398 HTA YYA 25 YYA HZ HZ H 0 1 N N N N N N 54.849 -2.599 42.851 -4.944 1.112 -0.173 HZ YYA 26 YYA HD1 HD1 H 0 1 N N N N N N 54.141 -1.366 38.149 0.641 2.481 0.675 HD1 YYA 27 YYA HD1A HD1A H 0 0 N N N N N N 55.640 -1.194 39.124 -1.105 2.742 0.907 HD1A YYA 28 YYA HD1B HD1B H 0 0 N N N N N N 55.745 -1.378 37.340 -0.156 1.904 2.159 HD1B YYA 29 YYA HD2 HD2 H 0 1 N N N N N N 54.567 -4.719 39.779 -1.765 0.051 2.069 HD2 YYA 30 YYA HD2A HD2A H 0 0 N N N N N N 53.311 -3.536 39.277 -2.010 -0.873 0.568 HD2A YYA 31 YYA HOG1 HOG1 H 0 0 N N N N N N 56.117 -5.510 39.100 0.210 -1.436 -0.930 HOG1 YYA 32 YYA HG2 HG2 H 0 1 N N N N N N 54.879 -3.638 37.470 -0.684 0.870 -0.664 HG2 YYA 33 YYA HXT HXT H 0 1 N Y N Y N Y 60.602 -3.861 39.035 4.090 -1.728 1.475 H19 YYA 34 # 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 YYA C OXT SING N N 1 YYA N CA SING N N 2 YYA O C DOUB N N 3 YYA CA C SING N N 4 YYA CA CB SING N N 5 YYA CE CZ DOUB N N 6 YYA CH CT DOUB N N 7 YYA CN N SING N N 8 YYA CZ CH SING N Z 9 YYA CD1 CG2 SING N N 10 YYA CD2 CE SING N N 11 YYA OG1 CB SING N N 12 YYA CG2 CB SING N N 13 YYA CG2 CD2 SING N N 14 YYA N H SING N N 15 YYA CA HA SING N N 16 YYA CB HB SING N N 17 YYA CE HE SING N N 18 YYA CH HH SING N N 19 YYA CN HN SING N N 20 YYA CN HNA SING N N 21 YYA CN H8 SING N N 22 YYA CT HT SING N N 23 YYA CT HTA SING N N 24 YYA CZ HZ SING N N 25 YYA CD1 HD1 SING N N 26 YYA CD1 HD1A SING N N 27 YYA CD1 HD1B SING N N 28 YYA CD2 HD2 SING N N 29 YYA CD2 HD2A SING N N 30 YYA OG1 HOG1 SING N N 31 YYA CG2 HG2 SING N N 32 YYA OXT HXT SING N N 33 # 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 YYA SMILES ACDLabs 12.01 "O=C(O)C(NC)C(O)C(C\C=C/C=C)C" YYA SMILES_CANONICAL CACTVS 3.370 "CN[C@@H]([C@H](O)[C@H](C)C\C=C/C=C)C(O)=O" YYA SMILES CACTVS 3.370 "CN[CH]([CH](O)[CH](C)CC=CC=C)C(O)=O" YYA SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "C[C@H](C/C=C\C=C)[C@H]([C@@H](C(=O)O)NC)O" YYA SMILES "OpenEye OEToolkits" 1.7.0 "CC(CC=CC=C)C(C(C(=O)O)NC)O" YYA InChI InChI 1.03 "InChI=1S/C11H19NO3/c1-4-5-6-7-8(2)10(13)9(12-3)11(14)15/h4-6,8-10,12-13H,1,7H2,2-3H3,(H,14,15)/b6-5-/t8-,9+,10-/m1/s1" YYA InChIKey InChI 1.03 NEXZFPQXALQHRJ-YVAZZEHLSA-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 YYA "SYSTEMATIC NAME" ACDLabs 12.01 "2,4,5-trideoxy-2-(methylamino)-4-[(2Z)-penta-2,4-dien-1-yl]-L-xylonic acid" YYA "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "(2S,3R,4R,6Z)-3-hydroxy-4-methyl-2-(methylamino)nona-6,8-dienoic 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 YYA "Create component" 2010-11-19 RCSB YYA "Modify descriptor" 2011-06-04 RCSB YYA "Modify backbone" 2023-11-03 PDBE #