data_YC2 # _chem_comp.id YC2 _chem_comp.name "N-{[(1S)-1-carboxy-5-{[(4-iodophenyl)carbonyl]amino}pentyl]carbamoyl}-L-glutamic acid" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H24 I N3 O8" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "(S)-2-(3-((S)-1-carboxy-(4-iodobenzamido)pentyl)ureido)pentanedioic acid" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2008-06-05 _chem_comp.pdbx_modified_date 2021-03-01 _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 549.314 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YC2 _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 3D7H _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.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 YC2 I24 I24 I 0 1 N N N 23.760 50.289 51.196 -9.045 0.297 -0.661 I24 YC2 1 YC2 C23 C23 C 0 1 Y N N 23.569 50.000 49.067 -7.028 0.391 -0.102 C23 YC2 2 YC2 C22 C22 C 0 1 Y N N 23.687 51.034 48.136 -6.592 1.402 0.736 C22 YC2 3 YC2 C21 C21 C 0 1 Y N N 23.542 50.860 46.740 -5.265 1.469 1.108 C21 YC2 4 YC2 C25 C25 C 0 1 Y N N 23.305 48.745 48.495 -6.139 -0.563 -0.568 C25 YC2 5 YC2 C26 C26 C 0 1 Y N N 23.190 48.561 47.096 -4.810 -0.507 -0.203 C26 YC2 6 YC2 C20 C20 C 0 1 Y N N 23.304 49.594 46.175 -4.363 0.513 0.638 C20 YC2 7 YC2 C19 C19 C 0 1 N N N 23.103 49.384 44.677 -2.940 0.579 1.033 C19 YC2 8 YC2 O27 O27 O 0 1 N N N 22.541 50.263 44.015 -2.553 1.466 1.768 O27 YC2 9 YC2 N18 N18 N 0 1 N N N 23.417 48.267 44.028 -2.070 -0.345 0.577 N18 YC2 10 YC2 C17 C17 C 0 1 N N N 23.219 47.936 42.619 -0.660 -0.280 0.968 C17 YC2 11 YC2 C16 C16 C 0 1 N N N 23.271 46.408 42.510 0.103 -1.436 0.319 C16 YC2 12 YC2 C15 C15 C 0 1 N N N 22.420 45.614 43.538 1.576 -1.368 0.727 C15 YC2 13 YC2 C14 C14 C 0 1 N N N 20.906 45.704 43.282 2.339 -2.524 0.078 C14 YC2 14 YC2 C13 C13 C 0 1 N N S 19.941 45.028 44.281 3.812 -2.456 0.486 C13 YC2 15 YC2 C28 C28 C 0 1 N N N 20.165 45.641 45.633 4.539 -3.661 -0.052 C28 YC2 16 YC2 O30 O30 O 0 1 N N N 20.779 44.961 46.476 4.157 -4.895 0.315 O30 YC2 17 YC2 O29 O29 O 0 1 N N N 19.687 46.798 45.888 5.465 -3.517 -0.814 O29 YC2 18 YC2 N12 N12 N 0 1 N N N 18.630 45.444 43.764 4.415 -1.238 -0.060 N12 YC2 19 YC2 C11 C11 C 0 1 N N N 17.931 44.709 42.868 5.494 -0.693 0.537 C11 YC2 20 YC2 O31 O31 O 0 1 N N N 18.322 43.634 42.364 5.966 -1.213 1.529 O31 YC2 21 YC2 N10 N10 N 0 1 N N N 16.706 45.194 42.514 6.048 0.428 0.034 N10 YC2 22 YC2 C6 C6 C 0 1 N N S 16.057 44.518 41.415 7.220 1.020 0.683 C6 YC2 23 YC2 C7 C7 C 0 1 N N N 17.023 44.715 40.250 6.772 1.918 1.806 C7 YC2 24 YC2 O9 O9 O 0 1 N N N 17.967 45.594 40.270 7.682 2.572 2.547 O9 YC2 25 YC2 O8 O8 O 0 1 N N N 16.960 43.935 39.255 5.595 2.051 2.041 O8 YC2 26 YC2 C5 C5 C 0 1 N N N 14.759 45.298 41.066 8.011 1.837 -0.340 C5 YC2 27 YC2 C4 C4 C 0 1 N N N 15.005 46.805 40.898 8.572 0.905 -1.415 C4 YC2 28 YC2 C2 C2 C 0 1 N N N 13.879 47.582 40.199 9.351 1.710 -2.423 C2 YC2 29 YC2 O1 O1 O 0 1 N N N 13.127 46.988 39.381 9.447 2.908 -2.295 O1 YC2 30 YC2 O3 O3 O 0 1 N N N 13.805 48.803 40.436 9.937 1.097 -3.464 O3 YC2 31 YC2 H22 H22 H 0 1 N N N 23.902 52.026 48.504 -7.291 2.141 1.099 H22 YC2 32 YC2 H21 H21 H 0 1 N N N 23.616 51.721 46.092 -4.926 2.258 1.762 H21 YC2 33 YC2 H25 H25 H 0 1 N N N 23.186 47.891 49.145 -6.487 -1.352 -1.218 H25 YC2 34 YC2 H26 H26 H 0 1 N N N 23.004 47.564 46.725 -4.118 -1.252 -0.567 H26 YC2 35 YC2 HN18 HN18 H 0 0 N N N 23.849 47.554 44.581 -2.379 -1.053 -0.010 HN18 YC2 36 YC2 H17 H17 H 0 1 N N N 22.245 48.312 42.271 -0.235 0.668 0.638 H17 YC2 37 YC2 H17A H17A H 0 0 N N N 23.995 48.401 41.993 -0.580 -0.356 2.053 H17A YC2 38 YC2 H16 H16 H 0 1 N N N 22.905 46.140 41.508 -0.322 -2.383 0.649 H16 YC2 39 YC2 H16A H16A H 0 0 N N N 24.316 46.131 42.713 0.023 -1.360 -0.766 H16A YC2 40 YC2 H15 H15 H 0 1 N N N 22.715 44.556 43.482 2.001 -0.420 0.397 H15 YC2 41 YC2 H15A H15A H 0 0 N N N 22.610 46.055 44.528 1.656 -1.444 1.812 H15A YC2 42 YC2 H14 H14 H 0 1 N N N 20.653 46.775 43.280 1.914 -3.471 0.408 H14 YC2 43 YC2 H14A H14A H 0 0 N N N 20.756 45.152 42.343 2.259 -2.448 -1.007 H14A YC2 44 YC2 H13 H13 H 0 1 N N N 20.055 43.938 44.376 3.887 -2.442 1.574 H13 YC2 45 YC2 HO30 HO30 H 0 0 N N N 20.822 45.437 47.297 4.654 -5.637 -0.057 HO30 YC2 46 YC2 HN12 HN12 H 0 0 N N N 18.238 46.305 44.087 4.038 -0.823 -0.852 HN12 YC2 47 YC2 HN10 HN10 H 0 0 N N N 16.284 45.968 42.986 5.671 0.842 -0.758 HN10 YC2 48 YC2 H6 H6 H 0 1 N N N 15.820 43.466 41.632 7.854 0.227 1.082 H6 YC2 49 YC2 HO9 HO9 H 0 1 N N N 18.496 45.509 39.486 7.346 3.137 3.256 HO9 YC2 50 YC2 H5 H5 H 0 1 N N N 14.359 44.903 40.121 7.354 2.573 -0.804 H5 YC2 51 YC2 H5A H5A H 0 1 N N N 14.053 45.164 41.898 8.833 2.350 0.161 H5A YC2 52 YC2 H4 H4 H 0 1 N N N 15.130 47.235 41.903 9.229 0.169 -0.952 H4 YC2 53 YC2 H4A H4A H 0 1 N N N 15.891 46.901 40.253 7.750 0.393 -1.916 H4A YC2 54 YC2 HO3 HO3 H 0 1 N N N 13.111 49.186 39.912 10.425 1.656 -4.084 HO3 YC2 55 # # 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 YC2 C23 I24 SING N N 1 YC2 C22 C23 DOUB Y N 2 YC2 C25 C23 SING Y N 3 YC2 C21 C22 SING Y N 4 YC2 C22 H22 SING N N 5 YC2 C20 C21 DOUB Y N 6 YC2 C21 H21 SING N N 7 YC2 C26 C25 DOUB Y N 8 YC2 C25 H25 SING N N 9 YC2 C20 C26 SING Y N 10 YC2 C26 H26 SING N N 11 YC2 C19 C20 SING N N 12 YC2 O27 C19 DOUB N N 13 YC2 N18 C19 SING N N 14 YC2 C17 N18 SING N N 15 YC2 N18 HN18 SING N N 16 YC2 C16 C17 SING N N 17 YC2 C17 H17 SING N N 18 YC2 C17 H17A SING N N 19 YC2 C16 C15 SING N N 20 YC2 C16 H16 SING N N 21 YC2 C16 H16A SING N N 22 YC2 C14 C15 SING N N 23 YC2 C15 H15 SING N N 24 YC2 C15 H15A SING N N 25 YC2 C14 C13 SING N N 26 YC2 C14 H14 SING N N 27 YC2 C14 H14A SING N N 28 YC2 N12 C13 SING N N 29 YC2 C13 C28 SING N N 30 YC2 C13 H13 SING N N 31 YC2 C28 O29 DOUB N N 32 YC2 C28 O30 SING N N 33 YC2 O30 HO30 SING N N 34 YC2 C11 N12 SING N N 35 YC2 N12 HN12 SING N N 36 YC2 O31 C11 DOUB N N 37 YC2 N10 C11 SING N N 38 YC2 C6 N10 SING N N 39 YC2 N10 HN10 SING N N 40 YC2 C7 C6 SING N N 41 YC2 C5 C6 SING N N 42 YC2 C6 H6 SING N N 43 YC2 O8 C7 DOUB N N 44 YC2 C7 O9 SING N N 45 YC2 O9 HO9 SING N N 46 YC2 C4 C5 SING N N 47 YC2 C5 H5 SING N N 48 YC2 C5 H5A SING N N 49 YC2 C2 C4 SING N N 50 YC2 C4 H4 SING N N 51 YC2 C4 H4A SING N N 52 YC2 O1 C2 DOUB N N 53 YC2 C2 O3 SING N N 54 YC2 O3 HO3 SING N N 55 # # 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 YC2 SMILES ACDLabs 10.04 "O=C(c1ccc(I)cc1)NCCCCC(C(=O)O)NC(=O)NC(C(=O)O)CCC(=O)O" YC2 SMILES_CANONICAL CACTVS 3.341 "OC(=O)CC[C@H](NC(=O)N[C@@H](CCCCNC(=O)c1ccc(I)cc1)C(O)=O)C(O)=O" YC2 SMILES CACTVS 3.341 "OC(=O)CC[CH](NC(=O)N[CH](CCCCNC(=O)c1ccc(I)cc1)C(O)=O)C(O)=O" YC2 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1cc(ccc1C(=O)NCCCC[C@@H](C(=O)O)NC(=O)N[C@@H](CCC(=O)O)C(=O)O)I" YC2 SMILES "OpenEye OEToolkits" 1.5.0 "c1cc(ccc1C(=O)NCCCCC(C(=O)O)NC(=O)NC(CCC(=O)O)C(=O)O)I" YC2 InChI InChI 1.03 "InChI=1S/C19H24IN3O8/c20-12-6-4-11(5-7-12)16(26)21-10-2-1-3-13(17(27)28)22-19(31)23-14(18(29)30)8-9-15(24)25/h4-7,13-14H,1-3,8-10H2,(H,21,26)(H,24,25)(H,27,28)(H,29,30)(H2,22,23,31)/t13-,14-/m0/s1" YC2 InChIKey InChI 1.03 ROXRILBFJQYPNZ-KBPBESRZSA-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 YC2 "SYSTEMATIC NAME" ACDLabs 10.04 "N-{[(1S)-1-carboxy-5-{[(4-iodophenyl)carbonyl]amino}pentyl]carbamoyl}-L-glutamic acid" YC2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S)-2-[[(2S)-1-hydroxy-6-[(4-iodophenyl)carbonylamino]-1-oxo-hexan-2-yl]carbamoylamino]pentanedioic 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 YC2 "Create component" 2008-06-05 RCSB YC2 "Modify aromatic_flag" 2011-06-04 RCSB YC2 "Modify descriptor" 2011-06-04 RCSB YC2 "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id YC2 _pdbx_chem_comp_synonyms.name "(S)-2-(3-((S)-1-carboxy-(4-iodobenzamido)pentyl)ureido)pentanedioic acid" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##