data_Y1Y # _chem_comp.id Y1Y _chem_comp.name "3-amino-2,3-dideoxy-5-O-(5-methylthiophene-2-carbonyl)-D-erythro-pentonic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C11 H15 N O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-06-02 _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 273.306 _chem_comp.one_letter_code ? _chem_comp.three_letter_code Y1Y _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 6X8H _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 Y1Y C01 C01 C 0 1 N N N N N N 34.609 -35.824 14.438 6.301 1.641 0.328 C01 Y1Y 1 Y1Y C02 C02 C 0 1 Y N N N N N 35.036 -34.372 14.616 5.166 0.664 0.160 C02 Y1Y 2 Y1Y C03 C03 C 0 1 Y N N N N N 35.532 -33.489 13.637 5.320 -0.651 -0.035 C03 Y1Y 3 Y1Y C04 C04 C 0 1 Y N N N N N 35.874 -32.181 14.126 4.151 -1.362 -0.164 C04 Y1Y 4 Y1Y C05 C05 C 0 1 Y N N N N N 35.591 -32.057 15.499 3.031 -0.583 -0.069 C05 Y1Y 5 Y1Y C06 C06 C 0 1 N N N N N N 35.797 -30.844 16.358 1.652 -1.063 -0.167 C06 Y1Y 6 Y1Y C08 C08 C 0 1 N N N N N N 36.438 -28.625 16.423 -0.715 -0.741 -0.164 C08 Y1Y 7 Y1Y C C09 C 0 1 N N S Y N Y 36.580 -27.410 15.543 -1.739 0.386 -0.015 C09 Y1Y 8 Y1Y CA C10 C 0 1 N N S Y N N 36.477 -26.052 16.224 -3.150 -0.205 -0.004 C10 Y1Y 9 Y1Y C11 C11 C 0 1 N N N N N N 36.717 -24.847 15.280 -4.174 0.923 0.146 C11 Y1Y 10 Y1Y C12 C12 C 0 1 N N N N N N 36.000 -23.621 15.863 -5.566 0.356 0.034 C12 Y1Y 11 Y1Y N N15 N 0 1 N N N Y Y N 37.399 -26.001 17.327 -3.281 -1.138 1.123 N15 Y1Y 12 Y1Y O07 O07 O 0 1 N N N N N N 36.177 -29.730 15.670 0.626 -0.195 -0.057 O07 Y1Y 13 Y1Y O13 O13 O 0 1 N N N N N N 35.021 -23.698 16.706 -6.631 1.166 0.135 O13 Y1Y 14 Y1Y O14 O14 O 0 1 N N N N N N 36.378 -22.471 15.484 -5.723 -0.829 -0.147 O14 Y1Y 15 Y1Y O O16 O 0 1 N N N Y N Y 36.062 -27.390 14.264 -1.611 1.294 -1.111 O16 Y1Y 16 Y1Y O17 O17 O 0 1 N N N N N N 35.566 -30.846 17.540 1.431 -2.246 -0.349 O17 Y1Y 17 Y1Y S18 S18 S 0 1 Y N N N N N 35.016 -33.522 16.092 3.514 1.086 0.198 S18 Y1Y 18 Y1Y H1 H1 H 0 1 N N N N N N 34.288 -36.234 15.407 5.899 2.643 0.476 H1 Y1Y 19 Y1Y H12 H2 H 0 1 N N N N N N 33.774 -35.876 13.724 6.898 1.357 1.195 H2 Y1Y 20 Y1Y H3 H3 H 0 1 N N N N N N 35.457 -36.411 14.055 6.927 1.628 -0.564 H3 Y1Y 21 Y1Y H4 H4 H 0 1 N N N N N N 35.646 -33.772 12.601 6.292 -1.120 -0.087 H4 Y1Y 22 Y1Y H5 H5 H 0 1 N N N N N N 36.294 -31.394 13.517 4.120 -2.430 -0.325 H5 Y1Y 23 Y1Y H6 H6 H 0 1 N N N N N N 37.373 -28.779 16.981 -0.871 -1.480 0.622 H6 Y1Y 24 Y1Y H7 H7 H 0 1 N N N N N N 35.611 -28.465 17.131 -0.837 -1.216 -1.138 H7 Y1Y 25 Y1Y H8 H8 H 0 1 N Y N Y N Y 37.660 -27.442 15.336 -1.560 0.918 0.920 H8 Y1Y 26 Y1Y HA H9 H 0 1 N N N Y N N 35.455 -25.957 16.618 -3.329 -0.736 -0.938 H9 Y1Y 27 Y1Y H10 H10 H 0 1 N N N N N N 36.315 -25.072 14.281 -4.052 1.397 1.120 H10 Y1Y 28 Y1Y H11 H11 H 0 1 N N N N N N 37.796 -24.645 15.204 -4.018 1.661 -0.640 H11 Y1Y 29 Y1Y H H12 H 0 1 N N N Y Y N 37.239 -26.781 17.932 -2.660 -1.926 1.015 H12 Y1Y 30 Y1Y H2 H13 H 0 1 N Y N Y Y N 38.336 -26.035 16.980 -3.120 -0.669 2.002 H13 Y1Y 31 Y1Y H15 H15 H 0 1 N N N N N N 34.720 -22.824 16.923 -7.503 0.756 0.057 H15 Y1Y 32 Y1Y H16 H16 H 0 1 N N N Y N Y 36.145 -28.253 13.875 -1.758 0.888 -1.977 H16 Y1Y 33 # 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 Y1Y C03 C04 SING Y N 1 Y1Y C03 C02 DOUB Y N 2 Y1Y C04 C05 DOUB Y N 3 Y1Y O C SING N N 4 Y1Y C01 C02 SING N N 5 Y1Y C02 S18 SING Y N 6 Y1Y C11 C12 SING N N 7 Y1Y C11 CA SING N N 8 Y1Y O14 C12 DOUB N N 9 Y1Y C05 S18 SING Y N 10 Y1Y C05 C06 SING N N 11 Y1Y C CA SING N N 12 Y1Y C C08 SING N N 13 Y1Y O07 C06 SING N N 14 Y1Y O07 C08 SING N N 15 Y1Y C12 O13 SING N N 16 Y1Y CA N SING N N 17 Y1Y C06 O17 DOUB N N 18 Y1Y C01 H1 SING N N 19 Y1Y C01 H12 SING N N 20 Y1Y C01 H3 SING N N 21 Y1Y C03 H4 SING N N 22 Y1Y C04 H5 SING N N 23 Y1Y C08 H6 SING N N 24 Y1Y C08 H7 SING N N 25 Y1Y C H8 SING N N 26 Y1Y CA HA SING N N 27 Y1Y C11 H10 SING N N 28 Y1Y C11 H11 SING N N 29 Y1Y N H SING N N 30 Y1Y N H2 SING N N 31 Y1Y O13 H15 SING N N 32 Y1Y O H16 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 Y1Y SMILES ACDLabs 12.01 "Cc1sc(cc1)C(=O)OCC(C(N)CC(O)=O)O" Y1Y InChI InChI 1.03 "InChI=1S/C11H15NO5S/c1-6-2-3-9(18-6)11(16)17-5-8(13)7(12)4-10(14)15/h2-3,7-8,13H,4-5,12H2,1H3,(H,14,15)/t7-,8+/m0/s1" Y1Y InChIKey InChI 1.03 KXRRUTLJMZJEOR-JGVFFNPUSA-N Y1Y SMILES_CANONICAL CACTVS 3.385 "Cc1sc(cc1)C(=O)OC[C@@H](O)[C@@H](N)CC(O)=O" Y1Y SMILES CACTVS 3.385 "Cc1sc(cc1)C(=O)OC[CH](O)[CH](N)CC(O)=O" Y1Y SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1ccc(s1)C(=O)OC[C@H]([C@H](CC(=O)O)N)O" Y1Y SMILES "OpenEye OEToolkits" 2.0.7 "Cc1ccc(s1)C(=O)OCC(C(CC(=O)O)N)O" # 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 Y1Y "SYSTEMATIC NAME" ACDLabs 12.01 "3-amino-2,3-dideoxy-5-O-(5-methylthiophene-2-carbonyl)-D-erythro-pentonic acid" Y1Y "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(3~{S},4~{S})-3-azanyl-5-(5-methylthiophen-2-yl)carbonyloxy-4-oxidanyl-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 Y1Y "Create component" 2020-06-02 RCSB Y1Y "Initial release" 2021-06-02 RCSB Y1Y "Modify backbone" 2023-11-03 PDBE #