data_YDB # _chem_comp.id YDB _chem_comp.name "1-[(2R)-2-{2-[(5-amino-1,3,4-thiadiazol-2-yl)sulfanyl]acetamido}-2-boronoethyl]-1H-1,2,3-triazole-4-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H12 B N7 O5 S2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-01-25 _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 373.176 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YDB _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 8FQW _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 YDB N1 N1 N 0 1 N N N N N N -5.946 1.810 -63.373 8.722 -0.426 0.701 N1 YDB 1 YDB C1 C1 C 0 1 Y N N N N N -5.711 1.476 -64.761 7.346 -0.336 0.521 C1 YDB 2 YDB N2 N2 N 0 1 Y N N N N N -6.001 0.307 -65.307 6.507 0.152 1.379 N2 YDB 3 YDB N3 N3 N 0 1 Y N N N N N -5.690 0.187 -66.680 5.185 0.142 0.990 N3 YDB 4 YDB C2 C2 C 0 1 Y N N N N N -5.134 1.336 -67.182 4.950 -0.354 -0.184 C2 YDB 5 YDB S1 S1 S 0 1 N N N N N N -4.607 1.585 -68.896 3.361 -0.492 -0.934 S1 YDB 6 YDB C3 C3 C 0 1 N N N N N N -5.397 0.262 -69.844 2.254 0.206 0.322 C3 YDB 7 YDB C4 C4 C 0 1 N N N N N N -4.808 0.330 -71.240 0.834 0.159 -0.178 C4 YDB 8 YDB O1 O1 O 0 1 N N N N N N -4.031 1.187 -71.510 0.592 -0.301 -1.274 O1 YDB 9 YDB N4 N4 N 0 1 N N N N N N -5.211 -0.669 -72.206 -0.168 0.627 0.592 N4 YDB 10 YDB C5 C5 C 0 1 N N R N N N -4.694 -0.650 -73.560 -1.549 0.581 0.106 C5 YDB 11 YDB C6 C6 C 0 1 N N N N N N -3.278 -1.211 -73.665 -2.465 0.067 1.219 C6 YDB 12 YDB N5 N5 N 0 1 Y N N N N N -3.048 -2.283 -72.719 -3.846 0.021 0.733 N5 YDB 13 YDB C7 C7 C 0 1 Y N N N N N -3.031 -3.649 -73.008 -4.666 -1.049 0.743 C7 YDB 14 YDB C8 C8 C 0 1 Y N N N N N -2.767 -4.325 -71.825 -5.852 -0.643 0.198 C8 YDB 15 YDB C9 C9 C 0 1 N N N N N N -2.649 -5.840 -71.658 -7.046 -1.487 0.008 C9 YDB 16 YDB O2 O2 O 0 1 N N N N N N -2.432 -6.565 -72.674 -7.027 -2.652 0.350 O2 YDB 17 YDB O3 O3 O 0 1 N N N N N N -2.756 -6.351 -70.504 -8.159 -0.964 -0.544 O3 YDB 18 YDB N6 N6 N 0 1 Y N N N N N -2.615 -3.394 -70.817 -5.745 0.655 -0.136 N6 YDB 19 YDB N7 N7 N 0 1 Y N N N N N -2.789 -2.122 -71.377 -4.571 1.083 0.173 N7 YDB 20 YDB B1 B1 B 0 1 N N N N N N -5.695 -1.467 -74.459 -2.002 2.022 -0.321 B1 YDB 21 YDB O5 O4 O 0 1 N N N N N N -6.351 -2.369 -73.693 -2.959 2.188 -1.357 O5 YDB 22 YDB O6 O5 O 0 1 N N N N N N -5.027 -2.111 -75.443 -1.455 3.160 0.329 O6 YDB 23 YDB S2 S2 S 0 1 Y N N N N N -5.002 2.602 -65.916 6.470 -0.861 -0.913 S2 YDB 24 YDB H1 H1 H 0 1 N N N N N N -5.647 2.749 -63.200 9.125 -0.108 1.525 H1 YDB 25 YDB H2 H2 H 0 1 N N N N N N -6.922 1.729 -63.171 9.278 -0.810 0.006 H2 YDB 26 YDB H3 H3 H 0 1 N N N N N N -6.485 0.418 -69.882 2.336 -0.375 1.241 H3 YDB 27 YDB H4 H4 H 0 1 N N N N N N -5.182 -0.715 -69.387 2.536 1.240 0.520 H4 YDB 28 YDB H5 H5 H 0 1 N N N N N N -5.856 -1.384 -71.935 0.026 0.994 1.469 H5 YDB 29 YDB H6 H6 H 0 1 N N N N N N -4.682 0.386 -73.929 -1.610 -0.088 -0.752 H6 YDB 30 YDB H7 H7 H 0 1 N N N N N N -3.123 -1.597 -74.683 -2.150 -0.934 1.515 H7 YDB 31 YDB H8 H8 H 0 1 N N N N N N -2.560 -0.402 -73.466 -2.404 0.736 2.077 H8 YDB 32 YDB H9 H9 H 0 1 N N N N N N -3.194 -4.098 -73.977 -4.431 -2.036 1.111 H9 YDB 33 YDB H10 H10 H 0 1 N N N N N N -2.649 -7.293 -70.563 -8.916 -1.556 -0.648 H10 YDB 34 YDB H11 H11 H 0 1 N N N N N N -6.820 -1.917 -73.002 -3.273 1.357 -1.738 H11 YDB 35 YDB H12 H12 H 0 1 N N N N N N -4.566 -1.478 -75.981 -0.812 2.947 1.020 H12 YDB 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 YDB O6 B1 SING N N 1 YDB B1 O5 SING N N 2 YDB B1 C5 SING N N 3 YDB C6 C5 SING N N 4 YDB C6 N5 SING N N 5 YDB C5 N4 SING N N 6 YDB C7 N5 SING Y N 7 YDB C7 C8 DOUB Y N 8 YDB N5 N7 SING Y N 9 YDB O2 C9 DOUB N N 10 YDB N4 C4 SING N N 11 YDB C8 C9 SING N N 12 YDB C8 N6 SING Y N 13 YDB C9 O3 SING N N 14 YDB O1 C4 DOUB N N 15 YDB N7 N6 DOUB Y N 16 YDB C4 C3 SING N N 17 YDB C3 S1 SING N N 18 YDB S1 C2 SING N N 19 YDB C2 N3 DOUB Y N 20 YDB C2 S2 SING Y N 21 YDB N3 N2 SING Y N 22 YDB S2 C1 SING Y N 23 YDB N2 C1 DOUB Y N 24 YDB C1 N1 SING N N 25 YDB N1 H1 SING N N 26 YDB N1 H2 SING N N 27 YDB C3 H3 SING N N 28 YDB C3 H4 SING N N 29 YDB N4 H5 SING N N 30 YDB C5 H6 SING N N 31 YDB C6 H7 SING N N 32 YDB C6 H8 SING N N 33 YDB C7 H9 SING N N 34 YDB O3 H10 SING N N 35 YDB O5 H11 SING N N 36 YDB O6 H12 SING N N 37 # 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 YDB SMILES ACDLabs 12.01 "O=C(CSc1nnc(N)s1)NC(Cn1cc(nn1)C(=O)O)B(O)O" YDB InChI InChI 1.06 "InChI=1S/C9H12BN7O5S2/c11-8-14-15-9(24-8)23-3-6(18)12-5(10(21)22)2-17-1-4(7(19)20)13-16-17/h1,5,21-22H,2-3H2,(H2,11,14)(H,12,18)(H,19,20)/t5-/m0/s1" YDB InChIKey InChI 1.06 JADCONPWNUDUNV-YFKPBYRVSA-N YDB SMILES_CANONICAL CACTVS 3.385 "Nc1sc(SCC(=O)N[C@@H](Cn2cc(nn2)C(O)=O)B(O)O)nn1" YDB SMILES CACTVS 3.385 "Nc1sc(SCC(=O)N[CH](Cn2cc(nn2)C(O)=O)B(O)O)nn1" YDB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "B([C@H](Cn1cc(nn1)C(=O)O)NC(=O)CSc2nnc(s2)N)(O)O" YDB SMILES "OpenEye OEToolkits" 2.0.7 "B(C(Cn1cc(nn1)C(=O)O)NC(=O)CSc2nnc(s2)N)(O)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 YDB "SYSTEMATIC NAME" ACDLabs 12.01 "1-[(2R)-2-{2-[(5-amino-1,3,4-thiadiazol-2-yl)sulfanyl]acetamido}-2-boronoethyl]-1H-1,2,3-triazole-4-carboxylic acid" YDB "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[(2~{R})-2-[2-[(5-azanyl-1,3,4-thiadiazol-2-yl)sulfanyl]ethanoylamino]-2-(dihydroxyboranyl)ethyl]-1,2,3-triazole-4-carboxylic 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 YDB "Create component" 2023-01-25 RCSB YDB "Initial release" 2023-07-05 RCSB YDB "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id YDB _pdbx_chem_comp_pcm.modified_residue_id SER _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical 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 B1 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom OG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #