data_X5L # _chem_comp.id X5L _chem_comp.name "(2~{S})-2-azanyl-6-[[(2~{R})-1-[[(1~{S})-2-methyl-1-sulfo-propyl]amino]-1-oxidanylidene-3-sulfanyl-propan-2-yl]amino]-6-oxidanylidene-hexanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H25 N3 O7 S2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-05-31 _chem_comp.pdbx_modified_date 2024-06-07 _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 399.484 _chem_comp.one_letter_code ? _chem_comp.three_letter_code X5L _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 8P7O _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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 X5L N N1 N 0 1 N N N N N N 12.948 -2.950 -7.774 0.545 -0.275 0.526 N X5L 1 X5L C C1 C 0 1 N N N N N N 13.393 -2.177 -8.767 1.747 -0.270 -0.084 C X5L 2 X5L O O1 O 0 1 N N N N N N 13.229 -2.458 -9.952 1.848 -0.664 -1.227 O X5L 3 X5L C1 C2 C 0 1 N N R N N N 11.951 -3.987 -7.979 -0.637 -0.761 -0.189 C1 X5L 4 X5L C10 C3 C 0 1 N N N N N N 14.212 1.607 -8.405 5.425 0.627 0.490 C10 X5L 5 X5L C11 C4 C 0 1 N N S N N N 13.646 2.883 -9.030 6.649 0.527 -0.423 C11 X5L 6 X5L C12 C5 C 0 1 N N N N N N 14.427 4.097 -8.550 7.842 1.134 0.269 C12 X5L 7 X5L C2 C6 C 0 1 N N N N N N 11.995 -5.003 -6.844 -0.722 -2.283 -0.058 C2 X5L 8 X5L C3 C7 C 0 1 N N N N N N 10.559 -3.364 -8.081 -1.875 -0.137 0.403 C3 X5L 9 X5L C4 C8 C 0 1 N N S N N N 9.726 -5.345 -9.374 -4.291 0.168 0.478 C4 X5L 10 X5L C5 C9 C 0 1 N N N N N N 9.585 -5.009 -10.898 -5.365 -0.906 0.665 C5 X5L 11 X5L C6 C10 C 0 1 N N N N N N 10.330 -6.007 -11.770 -4.789 -2.065 1.482 C6 X5L 12 X5L C7 C11 C 0 1 N N N N N N 8.128 -4.917 -11.323 -6.562 -0.306 1.405 C7 X5L 13 X5L C8 C12 C 0 1 N N N N N N 14.125 -0.927 -8.343 2.964 0.224 0.653 C8 X5L 14 X5L C9 C13 C 0 1 N N N N N N 13.477 0.350 -8.861 4.189 0.124 -0.259 C9 X5L 15 X5L N1 N2 N 0 1 N N N N N N 9.573 -4.147 -8.539 -3.088 -0.440 -0.098 N1 X5L 16 X5L N2 N3 N 0 1 N N N N N N 13.691 2.788 -10.502 6.923 -0.885 -0.722 N2 X5L 17 X5L O1 O2 O 0 1 N N N N N N 9.278 -6.918 -7.453 -6.072 2.087 0.118 O1 X5L 18 X5L O2 O3 O 0 1 N N N N N N 8.547 -7.688 -9.584 -3.963 2.505 -0.766 O2 X5L 19 X5L O3 O4 O 0 1 N N N N N N 7.359 -5.916 -8.386 -5.517 0.872 -1.785 O3 X5L 20 X5L O4 O5 O 0 1 N N N N N N 10.381 -2.197 -7.741 -1.778 0.638 1.331 O4 X5L 21 X5L O5 O6 O 0 1 N N N N N N 14.242 4.357 -7.281 8.003 2.466 0.284 O5 X5L 22 X5L O6 O7 O 0 1 N N N N N N 15.146 4.745 -9.281 8.654 0.421 0.811 O6 X5L 23 X5L S S1 S 0 1 N N N N N N 11.809 -4.267 -5.202 0.767 -3.035 -0.771 S X5L 24 X5L S1 S2 S 0 1 N N N N N N 8.577 -6.563 -8.721 -4.912 1.455 -0.639 S1 X5L 25 X5L H1 H1 H 0 1 N N N N N N 13.315 -2.810 -6.854 0.464 0.040 1.440 H1 X5L 26 X5L H2 H2 H 0 1 N N N N N N 12.163 -4.513 -8.922 -0.562 -0.491 -1.242 H2 X5L 27 X5L H3 H3 H 0 1 N N N N N N 15.271 1.517 -8.688 5.584 0.016 1.379 H3 X5L 28 X5L H4 H4 H 0 1 N N N N N N 14.130 1.685 -7.311 5.275 1.665 0.784 H4 X5L 29 X5L H5 H5 H 0 1 N N N N N N 12.600 2.992 -8.709 6.455 1.064 -1.351 H5 X5L 30 X5L H6 H6 H 0 1 N N N N N N 11.181 -5.727 -6.994 -0.797 -2.554 0.995 H6 X5L 31 X5L H7 H7 H 0 1 N N N N N N 12.962 -5.526 -6.883 -1.602 -2.645 -0.590 H7 X5L 32 X5L H8 H8 H 0 1 N N N N N N 10.728 -5.770 -9.214 -4.048 0.611 1.444 H8 X5L 33 X5L H9 H9 H 0 1 N N N N N N 10.042 -4.021 -11.056 -5.686 -1.273 -0.310 H9 X5L 34 X5L H10 H10 H 0 1 N N N N N N 11.381 -6.062 -11.450 -4.468 -1.699 2.457 H10 X5L 35 X5L H11 H11 H 0 1 N N N N N N 9.865 -6.999 -11.671 -5.554 -2.830 1.615 H11 X5L 36 X5L H12 H12 H 0 1 N N N N N N 10.283 -5.683 -12.820 -3.936 -2.493 0.955 H12 X5L 37 X5L H13 H13 H 0 1 N N N N N N 7.604 -4.192 -10.683 -7.057 0.423 0.764 H13 X5L 38 X5L H14 H14 H 0 1 N N N N N N 8.072 -4.588 -12.371 -7.265 -1.099 1.662 H14 X5L 39 X5L H15 H15 H 0 1 N N N N N N 7.654 -5.904 -11.222 -6.218 0.184 2.316 H15 X5L 40 X5L H16 H16 H 0 1 N N N N N N 15.155 -0.977 -8.726 2.814 1.263 0.947 H16 X5L 41 X5L H17 H17 H 0 1 N N N N N N 14.144 -0.889 -7.244 3.123 -0.386 1.543 H17 X5L 42 X5L H18 H18 H 0 1 N N N N N N 12.441 0.394 -8.493 4.030 0.734 -1.148 H18 X5L 43 X5L H19 H19 H 0 1 N N N N N N 13.474 0.323 -9.961 4.339 -0.914 -0.553 H19 X5L 44 X5L H20 H20 H 0 1 N N N N N N 8.640 -3.890 -8.287 -3.166 -1.059 -0.840 H20 X5L 45 X5L H21 H21 H 0 1 N N N N N N 13.174 1.986 -10.801 7.106 -1.405 0.123 H21 X5L 46 X5L H22 H22 H 0 1 N N N N N N 13.289 3.612 -10.902 6.164 -1.298 -1.243 H22 X5L 47 X5L H24 H24 H 0 1 N N N N N N 14.753 5.119 -7.036 8.784 2.809 0.740 H24 X5L 48 X5L H25 H25 H 0 1 N N N N N N 11.879 -5.310 -4.429 0.558 -4.351 -0.590 H25 X5L 49 X5L H23 H23 H 0 1 N N N N N N 8.756 -6.634 -6.712 -6.511 2.803 -0.361 H23 X5L 50 # 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 X5L C6 C5 SING N N 1 X5L C7 C5 SING N N 2 X5L C5 C4 SING N N 3 X5L N2 C11 SING N N 4 X5L O C DOUB N N 5 X5L O2 S1 DOUB N N 6 X5L C4 S1 SING N N 7 X5L C4 N1 SING N N 8 X5L O6 C12 DOUB N N 9 X5L C11 C12 SING N N 10 X5L C11 C10 SING N N 11 X5L C9 C10 SING N N 12 X5L C9 C8 SING N N 13 X5L C C8 SING N N 14 X5L C N SING N N 15 X5L S1 O3 DOUB N N 16 X5L S1 O1 SING N N 17 X5L C12 O5 SING N N 18 X5L N1 C3 SING N N 19 X5L C3 C1 SING N N 20 X5L C3 O4 DOUB N N 21 X5L C1 N SING N N 22 X5L C1 C2 SING N N 23 X5L C2 S SING N N 24 X5L N H1 SING N N 25 X5L C1 H2 SING N N 26 X5L C10 H3 SING N N 27 X5L C10 H4 SING N N 28 X5L C11 H5 SING N N 29 X5L C2 H6 SING N N 30 X5L C2 H7 SING N N 31 X5L C4 H8 SING N N 32 X5L C5 H9 SING N N 33 X5L C6 H10 SING N N 34 X5L C6 H11 SING N N 35 X5L C6 H12 SING N N 36 X5L C7 H13 SING N N 37 X5L C7 H14 SING N N 38 X5L C7 H15 SING N N 39 X5L C8 H16 SING N N 40 X5L C8 H17 SING N N 41 X5L C9 H18 SING N N 42 X5L C9 H19 SING N N 43 X5L N1 H20 SING N N 44 X5L N2 H21 SING N N 45 X5L N2 H22 SING N N 46 X5L O5 H24 SING N N 47 X5L S H25 SING N N 48 X5L O1 H23 SING N N 49 # 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 X5L InChI InChI 1.06 "InChI=1S/C13H25N3O7S2/c1-7(2)12(25(21,22)23)16-11(18)9(6-24)15-10(17)5-3-4-8(14)13(19)20/h7-9,12,24H,3-6,14H2,1-2H3,(H,15,17)(H,16,18)(H,19,20)(H,21,22,23)/t8-,9-,12-/m0/s1" X5L InChIKey InChI 1.06 SLYPAEUXHCDCFQ-AUTRQRHGSA-N X5L SMILES_CANONICAL CACTVS 3.385 "CC(C)[C@@H](NC(=O)[C@H](CS)NC(=O)CCC[C@H](N)C(O)=O)[S](O)(=O)=O" X5L SMILES CACTVS 3.385 "CC(C)[CH](NC(=O)[CH](CS)NC(=O)CCC[CH](N)C(O)=O)[S](O)(=O)=O" X5L SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)[C@@H](NC(=O)[C@H](CS)NC(=O)CCC[C@@H](C(=O)O)N)S(=O)(=O)O" X5L SMILES "OpenEye OEToolkits" 2.0.7 "CC(C)C(NC(=O)C(CS)NC(=O)CCCC(C(=O)O)N)S(=O)(=O)O" # _pdbx_chem_comp_identifier.comp_id X5L _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "(2~{S})-2-azanyl-6-[[(2~{R})-1-[[(1~{S})-2-methyl-1-sulfo-propyl]amino]-1-oxidanylidene-3-sulfanyl-propan-2-yl]amino]-6-oxidanylidene-hexanoic 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 X5L "Create component" 2023-05-31 PDBE X5L "Initial release" 2024-06-12 RCSB #