data_V8M # _chem_comp.id V8M _chem_comp.name "N-[2-(2-hydroxy-5-nitrophenyl)ethyl]-5-[(3aS,4S,6aS)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H24 N4 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-07-17 _chem_comp.pdbx_modified_date 2021-02-26 _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 408.472 _chem_comp.one_letter_code ? _chem_comp.three_letter_code V8M _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 6XND _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 V8M C10 C1 C 0 1 N N N -23.325 10.147 -15.516 3.103 0.473 -1.000 C10 V8M 1 V8M C13 C2 C 0 1 N N S -20.289 11.483 -17.651 6.735 1.259 0.086 C13 V8M 2 V8M C15 C3 C 0 1 N N N -19.178 13.344 -17.551 7.413 -0.005 1.872 C15 V8M 3 V8M C22 C4 C 0 1 Y N N -29.049 4.456 -16.281 -6.368 0.438 -0.444 C22 V8M 4 V8M C28 C5 C 0 1 Y N N -27.704 2.213 -17.206 -7.030 -1.860 0.951 C28 V8M 5 V8M C02 C6 C 0 1 Y N N -27.103 3.075 -16.302 -5.841 -1.800 0.238 C02 V8M 6 V8M C03 C7 C 0 1 Y N N -27.783 4.183 -15.834 -5.512 -0.647 -0.461 C03 V8M 7 V8M C04 C8 C 0 1 N N N -27.115 5.162 -14.853 -4.222 -0.578 -1.237 C04 V8M 8 V8M C05 C9 C 0 1 N N N -26.473 6.252 -15.715 -3.066 -0.281 -0.279 C05 V8M 9 V8M C07 C10 C 0 1 N N N -25.994 8.678 -15.393 -0.653 0.037 -0.393 C07 V8M 10 V8M C08 C11 C 0 1 N N N -25.550 9.755 -14.387 0.637 0.106 -1.169 C08 V8M 11 V8M C09 C12 C 0 1 N N N -24.621 10.818 -15.018 1.793 0.403 -0.212 C09 V8M 12 V8M C11 C13 C 0 1 N N N -22.448 11.103 -16.345 4.259 0.769 -0.042 C11 V8M 13 V8M C12 C14 C 0 1 N N S -21.206 10.454 -16.681 5.568 0.839 -0.830 C12 V8M 14 V8M C18 C15 C 0 1 N N S -18.976 11.181 -17.440 8.041 0.535 -0.264 C18 V8M 15 V8M C19 C16 C 0 1 N N N -18.919 9.884 -16.299 7.875 -0.438 -1.447 C19 V8M 16 V8M C23 C17 C 0 1 Y N N -29.659 3.595 -17.184 -7.552 0.375 0.267 C23 V8M 17 V8M C27 C18 C 0 1 Y N N -28.983 2.467 -17.648 -7.882 -0.773 0.964 C27 V8M 18 V8M N06 N1 N 0 1 N N N -26.047 7.337 -14.853 -1.812 -0.214 -1.033 N06 V8M 19 V8M N14 N2 N 0 1 N N N -20.486 12.785 -17.770 6.448 0.830 1.464 N14 V8M 20 V8M N16 N3 N 0 1 N N N -18.227 12.254 -17.423 8.361 -0.229 0.952 N16 V8M 21 V8M N24 N4 N 0 1 N N N -30.997 3.924 -17.631 -8.467 1.538 0.283 N24 V8M 22 V8M O01 O1 O 0 1 N N N -25.811 2.824 -15.836 -5.001 -2.868 0.223 O01 V8M 23 V8M O17 O2 O 0 1 N N N -18.892 14.486 -17.540 7.427 -0.513 2.976 O17 V8M 24 V8M O21 O3 O 0 1 N N N -26.305 8.883 -16.538 -0.648 0.208 0.808 O21 V8M 25 V8M O25 O4 O 0 1 N N N -32.064 3.884 -16.728 -8.177 2.549 -0.330 O25 V8M 26 V8M O26 O5 O 0 1 N N N -31.176 4.256 -18.750 -9.510 1.484 0.910 O26 V8M 27 V8M S20 S1 S 0 1 N N N -20.083 10.372 -15.435 6.079 -0.835 -1.395 S20 V8M 28 V8M H102 H1 H 0 0 N N N -22.748 9.805 -14.645 3.279 -0.481 -1.497 H102 V8M 29 V8M H101 H2 H 0 0 N N N -23.593 9.282 -16.141 3.036 1.265 -1.745 H101 V8M 30 V8M H131 H3 H 0 0 N N N -20.498 11.080 -18.653 6.878 2.339 0.043 H131 V8M 31 V8M H221 H4 H 0 0 N N N -29.570 5.336 -15.933 -6.109 1.337 -0.984 H221 V8M 32 V8M H281 H5 H 0 0 N N N -27.170 1.344 -17.563 -7.289 -2.757 1.495 H281 V8M 33 V8M H042 H6 H 0 0 N N N -27.866 5.600 -14.180 -4.046 -1.531 -1.735 H042 V8M 34 V8M H041 H7 H 0 0 N N N -26.348 4.644 -14.259 -4.288 0.215 -1.982 H041 V8M 35 V8M H052 H8 H 0 0 N N N -25.603 5.839 -16.247 -3.242 0.672 0.219 H052 V8M 36 V8M H051 H9 H 0 0 N N N -27.206 6.626 -16.445 -3.000 -1.074 0.467 H051 V8M 37 V8M H081 H10 H 0 0 N N N -26.445 10.259 -13.994 0.813 -0.847 -1.667 H081 V8M 38 V8M H082 H11 H 0 0 N N N -25.013 9.265 -13.561 0.571 0.899 -1.915 H082 V8M 39 V8M H091 H12 H 0 0 N N N -24.372 11.579 -14.264 1.859 -0.390 0.534 H091 V8M 40 V8M H092 H13 H 0 0 N N N -25.134 11.295 -15.866 1.617 1.356 0.286 H092 V8M 41 V8M H112 H14 H 0 0 N N N -22.979 11.378 -17.269 4.083 1.722 0.456 H112 V8M 42 V8M H111 H15 H 0 0 N N N -22.240 12.010 -15.758 4.325 -0.023 0.703 H111 V8M 43 V8M H121 H16 H 0 0 N N N -21.324 9.472 -17.162 5.474 1.523 -1.674 H121 V8M 44 V8M H181 H18 H 0 0 N N N -18.678 10.658 -18.361 8.829 1.259 -0.473 H1 V8M 45 V8M H191 H19 H 0 0 N N N -17.968 9.846 -15.747 8.136 0.047 -2.387 H191 V8M 46 V8M H192 H20 H 0 0 N N N -19.115 8.905 -16.760 8.473 -1.337 -1.295 H2 V8M 47 V8M H271 H22 H 0 0 N N N -29.459 1.798 -18.349 -8.807 -0.819 1.519 H271 V8M 48 V8M H061 H23 H 0 0 N N N -25.794 7.161 -13.902 -1.816 -0.351 -1.994 H061 V8M 49 V8M H141 H24 H 0 0 N N N -21.340 13.267 -17.966 5.683 1.107 1.991 H141 V8M 50 V8M H161 H25 H 0 0 N N N -17.232 12.310 -17.341 9.134 -0.803 1.069 H161 V8M 51 V8M H011 H26 H 0 0 N N N -25.555 3.508 -15.228 -5.171 -3.492 -0.495 H011 V8M 52 # # 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 V8M C10 C09 SING N N 1 V8M C10 C11 SING N N 2 V8M C13 C12 SING N N 3 V8M C13 C18 SING N N 4 V8M C13 N14 SING N N 5 V8M C15 N14 SING N N 6 V8M C15 N16 SING N N 7 V8M C15 O17 DOUB N N 8 V8M C22 C03 DOUB Y N 9 V8M C22 C23 SING Y N 10 V8M C28 C02 DOUB Y N 11 V8M C28 C27 SING Y N 12 V8M C02 C03 SING Y N 13 V8M C02 O01 SING N N 14 V8M C03 C04 SING N N 15 V8M C04 C05 SING N N 16 V8M C05 N06 SING N N 17 V8M C07 C08 SING N N 18 V8M C07 N06 SING N N 19 V8M C07 O21 DOUB N N 20 V8M C08 C09 SING N N 21 V8M C11 C12 SING N N 22 V8M C12 S20 SING N N 23 V8M C18 N16 SING N N 24 V8M C19 S20 SING N N 25 V8M C23 C27 DOUB Y N 26 V8M C23 N24 SING N N 27 V8M N24 O25 DOUB N N 28 V8M N24 O26 DOUB N N 29 V8M C10 H102 SING N N 30 V8M C10 H101 SING N N 31 V8M C13 H131 SING N N 32 V8M C22 H221 SING N N 33 V8M C28 H281 SING N N 34 V8M C04 H042 SING N N 35 V8M C04 H041 SING N N 36 V8M C05 H052 SING N N 37 V8M C05 H051 SING N N 38 V8M C08 H081 SING N N 39 V8M C08 H082 SING N N 40 V8M C09 H091 SING N N 41 V8M C09 H092 SING N N 42 V8M C11 H112 SING N N 43 V8M C11 H111 SING N N 44 V8M C12 H121 SING N N 45 V8M C18 H181 SING N N 46 V8M C19 H191 SING N N 47 V8M C19 H192 SING N N 48 V8M C27 H271 SING N N 49 V8M N06 H061 SING N N 50 V8M N14 H141 SING N N 51 V8M N16 H161 SING N N 52 V8M O01 H011 SING N N 53 V8M C18 C19 SING N N 54 # # 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 V8M SMILES ACDLabs 12.01 "C(CCC(NCCc1cc(ccc1O)N(=O)=O)=O)CC3C2C(NC(N2)=O)CS3" V8M InChI InChI 1.03 "InChI=1S/C18H24N4O5S/c23-14-6-5-12(22(26)27)9-11(14)7-8-19-16(24)4-2-1-3-15-17-13(10-28-15)20-18(25)21-17/h5-6,9,13,15,17,23H,1-4,7-8,10H2,(H,19,24)(H2,20,21,25)/t13-,15+,17+/m1/s1" V8M InChIKey InChI 1.03 GGNOUTGIVZKNRF-KMFMINBZSA-N V8M SMILES_CANONICAL CACTVS 3.385 "Oc1ccc(cc1CCNC(=O)CCCC[C@@H]2SC[C@H]3NC(=O)N[C@H]23)[N](=O)=O" V8M SMILES CACTVS 3.385 "Oc1ccc(cc1CCNC(=O)CCCC[CH]2SC[CH]3NC(=O)N[CH]23)[N](=O)=O" V8M SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1N(=O)=O)CCNC(=O)CCCC[C@H]2[C@@H]3C(CS2)NC(=O)N3)O" V8M SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1N(=O)=O)CCNC(=O)CCCCC2C3C(CS2)NC(=O)N3)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 V8M "SYSTEMATIC NAME" ACDLabs 12.01 "N-[2-(2-hydroxy-5-nitrophenyl)ethyl]-5-[(3aS,4S,6aS)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanamide" V8M "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "5-[(3~{a}~{S},4~{S})-2-oxidanylidene-1,3,3~{a},4,6,6~{a}-hexahydrothieno[3,4-d]imidazol-4-yl]-~{N}-[2-(5-nitro-2-oxidanyl-phenyl)ethyl]pentanamide" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site V8M "Create component" 2020-07-17 RCSB V8M "Modify atom id" 2020-07-17 RCSB V8M "Initial release" 2021-03-03 RCSB ##