data_VA0 # _chem_comp.id VA0 _chem_comp.name "Rifamycin S" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C37 H45 N O12" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "(2S,12Z,14Z,16S,17S,18R,19R,20R,21S,22R,23S,24E)-5,17,19-trihydroxy-23-methoxy-2,4,12,16,18,20,22-heptamethyl-1,6,9,11-tetraoxo-1,2,6,9-tetrahydro-2,7-(epoxypentadeca[1,11,13]trienoimino)naphtho[2,1-b]furan-21-yl acetate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-08-18 _chem_comp.pdbx_modified_date 2023-03-10 _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 695.753 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VA0 _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 8E3N _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 VA0 C1 C1 C 0 1 N N N 14.980 -14.664 -0.316 14.980 -14.664 -0.316 C1 VA0 1 VA0 C2 C2 C 0 1 N N N 14.986 -15.194 -1.719 14.986 -15.194 -1.719 C2 VA0 2 VA0 C3 C3 C 0 1 N N N 14.438 -14.468 -2.718 14.438 -14.468 -2.718 C3 VA0 3 VA0 C4 C4 C 0 1 N N N 13.680 -13.259 -2.436 13.680 -13.259 -2.436 C4 VA0 4 VA0 C5 C5 C 0 1 Y N N 12.588 -11.775 -0.682 12.588 -11.775 -0.682 C5 VA0 5 VA0 C6 C6 C 0 1 Y N N 12.394 -11.437 0.654 12.394 -11.437 0.654 C6 VA0 6 VA0 C7 C7 C 0 1 Y N N 13.026 -12.109 1.695 13.026 -12.109 1.695 C7 VA0 7 VA0 C8 C8 C 0 1 Y N N 13.878 -13.171 1.350 13.878 -13.171 1.350 C8 VA0 8 VA0 C9 C9 C 0 1 Y N N 14.088 -13.543 0.008 14.088 -13.543 0.008 C9 VA0 9 VA0 C10 C10 C 0 1 Y N N 13.444 -12.844 -1.029 13.444 -12.844 -1.029 C10 VA0 10 VA0 C11 C11 C 0 1 N N N 11.757 -10.845 -1.448 11.757 -10.845 -1.448 C11 VA0 11 VA0 C12 C12 C 0 1 N N S 10.976 -10.011 -0.439 10.976 -10.011 -0.439 C12 VA0 12 VA0 C13 C13 C 0 1 N N N 11.132 -8.533 -0.665 11.132 -8.533 -0.665 C13 VA0 13 VA0 C14 C14 C 0 1 N N N 12.793 -11.706 3.126 12.793 -11.706 3.126 C14 VA0 14 VA0 C15 C15 C 0 1 N N N 15.551 -17.207 -3.007 15.551 -17.207 -3.007 C15 VA0 15 VA0 C16 C16 C 0 1 N N N 15.417 -18.614 -2.820 15.417 -18.614 -2.820 C16 VA0 16 VA0 C17 C17 C 0 1 N N N 14.698 -19.383 -3.655 14.698 -19.383 -3.655 C17 VA0 17 VA0 C18 C18 C 0 1 N N N 14.042 -19.016 -4.884 14.042 -19.016 -4.884 C18 VA0 18 VA0 C19 C19 C 0 1 N N N 12.861 -19.464 -5.287 12.861 -19.464 -5.287 C19 VA0 19 VA0 C20 C20 C 0 1 N N S 11.739 -20.123 -4.529 11.739 -20.123 -4.529 C20 VA0 20 VA0 C21 C21 C 0 1 N N S 11.150 -19.227 -3.426 11.150 -19.227 -3.426 C21 VA0 21 VA0 C22 C22 C 0 1 N N R 9.799 -19.690 -2.852 9.799 -19.690 -2.852 C22 VA0 22 VA0 C23 C23 C 0 1 N N R 9.201 -18.667 -1.865 9.201 -18.667 -1.865 C23 VA0 23 VA0 C24 C24 C 0 1 N N R 9.143 -17.210 -2.367 9.143 -17.210 -2.367 C24 VA0 24 VA0 C25 C25 C 0 1 N N S 8.638 -16.282 -1.248 8.638 -16.282 -1.248 C25 VA0 25 VA0 C26 C26 C 0 1 N N R 9.058 -14.809 -1.340 9.058 -14.809 -1.340 C26 VA0 26 VA0 C27 C27 C 0 1 N N S 8.114 -13.842 -0.591 8.114 -13.842 -0.591 C27 VA0 27 VA0 C28 C28 C 0 1 N N N 8.289 -12.361 -0.800 8.289 -12.361 -0.800 C28 VA0 28 VA0 C29 C29 C 0 1 N N N 9.309 -11.671 -0.319 9.309 -11.671 -0.319 C29 VA0 29 VA0 C30 C30 C 0 1 N N N 16.061 -19.139 -1.567 16.061 -19.139 -1.567 C30 VA0 30 VA0 C31 C31 C 0 1 N N N 10.673 -20.526 -5.538 10.673 -20.526 -5.538 C31 VA0 31 VA0 C32 C32 C 0 1 N N N 9.930 -21.066 -2.184 9.930 -21.066 -2.184 C32 VA0 32 VA0 C33 C33 C 0 1 N N N 8.252 -17.088 -3.610 8.252 -17.088 -3.610 C33 VA0 33 VA0 C34 C34 C 0 1 N N N 10.513 -14.654 -0.925 10.513 -14.654 -0.925 C34 VA0 34 VA0 C35 C35 C 0 1 N N N 6.562 -17.075 -0.314 6.562 -17.075 -0.314 C35 VA0 35 VA0 C36 C36 C 0 1 N N N 5.085 -17.008 -0.471 5.085 -17.008 -0.471 C36 VA0 36 VA0 C37 C37 C 0 1 N N N 6.700 -13.845 1.325 6.700 -13.845 1.325 C37 VA0 37 VA0 N1 N1 N 0 1 N N N 15.556 -16.461 -1.877 15.556 -16.461 -1.877 N1 VA0 38 VA0 O1 O1 O 0 1 N N N 15.683 -15.229 0.563 15.683 -15.229 0.563 O1 VA0 39 VA0 O2 O2 O 0 1 N N N 14.499 -13.842 2.342 14.499 -13.842 2.342 O2 VA0 40 VA0 O3 O3 O 0 1 N N N 11.545 -10.384 0.867 11.545 -10.384 0.867 O3 VA0 41 VA0 O4 O4 O 0 1 N N N 11.614 -10.727 -2.650 11.614 -10.727 -2.650 O4 VA0 42 VA0 O5 O5 O 0 1 N N N 9.598 -10.320 -0.473 9.598 -10.320 -0.473 O5 VA0 43 VA0 O6 O6 O 0 1 N N N 7.990 -14.160 0.814 7.990 -14.160 0.814 O6 VA0 44 VA0 O7 O7 O 0 1 N N N 7.184 -16.328 -1.245 7.184 -16.328 -1.245 O7 VA0 45 VA0 O8 O8 O 0 1 N N N 7.148 -17.693 0.530 7.148 -17.693 0.530 O8 VA0 46 VA0 O9 O9 O 0 1 N N N 9.942 -18.702 -0.651 9.942 -18.702 -0.651 O9 VA0 47 VA0 O10 O10 O 0 1 N N N 12.095 -19.104 -2.366 12.095 -19.104 -2.366 O10 VA0 48 VA0 O11 O11 O 0 1 N N N 15.613 -16.741 -4.151 15.613 -16.741 -4.151 O11 VA0 49 VA0 O12 O12 O 0 1 N N N 13.230 -12.605 -3.371 13.230 -12.605 -3.371 O12 VA0 50 VA0 H1 H1 H 0 1 N N N 14.565 -14.790 -3.741 14.565 -14.790 -3.741 H1 VA0 51 VA0 H3 H3 H 0 1 N N N 10.549 -7.983 0.089 10.550 -7.983 0.089 H3 VA0 52 VA0 H4 H4 H 0 1 N N N 12.194 -8.259 -0.579 12.194 -8.259 -0.579 H4 VA0 53 VA0 H5 H5 H 0 1 N N N 10.767 -8.275 -1.670 10.767 -8.275 -1.670 H5 VA0 54 VA0 H6 H6 H 0 1 N N N 11.939 -12.268 3.531 11.939 -12.268 3.531 H6 VA0 55 VA0 H7 H7 H 0 1 N N N 13.692 -11.927 3.720 13.692 -11.927 3.720 H7 VA0 56 VA0 H8 H8 H 0 1 N N N 12.578 -10.628 3.173 12.578 -10.628 3.173 H8 VA0 57 VA0 H9 H9 H 0 1 N N N 14.598 -20.419 -3.365 14.598 -20.419 -3.365 H9 VA0 58 VA0 H10 H10 H 0 1 N N N 14.554 -18.319 -5.530 14.554 -18.319 -5.530 H10 VA0 59 VA0 H12 H12 H 0 1 N N N 12.671 -19.334 -6.342 12.671 -19.334 -6.342 H12 VA0 60 VA0 H14 H14 H 0 1 N N N 12.128 -21.036 -4.055 12.128 -21.036 -4.055 H14 VA0 61 VA0 H15 H15 H 0 1 N N N 10.990 -18.233 -3.868 10.990 -18.233 -3.868 H15 VA0 62 VA0 H16 H16 H 0 1 N N N 9.097 -19.792 -3.692 9.097 -19.792 -3.693 H16 VA0 63 VA0 H17 H17 H 0 1 N N N 8.168 -18.981 -1.657 8.167 -18.981 -1.657 H17 VA0 64 VA0 H18 H18 H 0 1 N N N 10.162 -16.899 -2.640 10.162 -16.899 -2.640 H18 VA0 65 VA0 H19 H19 H 0 1 N N N 9.008 -16.678 -0.291 9.008 -16.678 -0.291 H19 VA0 66 VA0 H20 H20 H 0 1 N N N 9.003 -14.534 -2.404 9.003 -14.534 -2.404 H20 VA0 67 VA0 H21 H21 H 0 1 N N N 7.123 -14.059 -1.017 7.123 -14.059 -1.017 H21 VA0 68 VA0 H22 H22 H 0 1 N N N 7.541 -11.834 -1.374 7.541 -11.834 -1.374 H22 VA0 69 VA0 H23 H23 H 0 1 N N N 10.014 -12.234 0.275 10.014 -12.234 0.275 H23 VA0 70 VA0 H24 H24 H 0 1 N N N 16.591 -18.321 -1.056 16.591 -18.322 -1.056 H24 VA0 71 VA0 H25 H25 H 0 1 N N N 15.287 -19.547 -0.900 15.287 -19.547 -0.900 H25 VA0 72 VA0 H26 H26 H 0 1 N N N 16.776 -19.933 -1.828 16.776 -19.933 -1.827 H26 VA0 73 VA0 H27 H27 H 0 1 N N N 9.837 -21.012 -5.014 9.837 -21.012 -5.014 H27 VA0 74 VA0 H28 H28 H 0 1 N N N 10.307 -19.631 -6.062 10.307 -19.631 -6.062 H28 VA0 75 VA0 H29 H29 H 0 1 N N N 11.105 -21.227 -6.268 11.105 -21.227 -6.268 H29 VA0 76 VA0 H30 H30 H 0 1 N N N 8.953 -21.374 -1.783 8.953 -21.374 -1.783 H30 VA0 77 VA0 H31 H31 H 0 1 N N N 10.270 -21.803 -2.926 10.270 -21.803 -2.926 H31 VA0 78 VA0 H32 H32 H 0 1 N N N 10.661 -21.007 -1.364 10.661 -21.007 -1.364 H32 VA0 79 VA0 H33 H33 H 0 1 N N N 8.230 -16.040 -3.944 8.230 -16.040 -3.944 H33 VA0 80 VA0 H34 H34 H 0 1 N N N 8.656 -17.721 -4.414 8.656 -17.721 -4.414 H34 VA0 81 VA0 H35 H35 H 0 1 N N N 7.231 -17.416 -3.363 7.231 -17.416 -3.363 H35 VA0 82 VA0 H36 H36 H 0 1 N N N 10.804 -13.595 -0.994 10.804 -13.595 -0.994 H36 VA0 83 VA0 H37 H37 H 0 1 N N N 10.638 -15.001 0.111 10.637 -15.001 0.111 H37 VA0 84 VA0 H38 H38 H 0 1 N N N 11.150 -15.254 -1.592 11.150 -15.254 -1.592 H38 VA0 85 VA0 H39 H39 H 0 1 N N N 4.605 -17.616 0.310 4.605 -17.616 0.310 H39 VA0 86 VA0 H40 H40 H 0 1 N N N 4.754 -15.963 -0.378 4.753 -15.963 -0.378 H40 VA0 87 VA0 H41 H41 H 0 1 N N N 4.804 -17.395 -1.461 4.804 -17.395 -1.461 H41 VA0 88 VA0 H42 H42 H 0 1 N N N 6.655 -14.104 2.393 6.655 -14.104 2.393 H42 VA0 89 VA0 H43 H43 H 0 1 N N N 6.509 -12.769 1.200 6.509 -12.769 1.200 H43 VA0 90 VA0 H44 H44 H 0 1 N N N 5.938 -14.419 0.776 5.938 -14.419 0.776 H44 VA0 91 VA0 H45 H45 H 0 1 N N N 15.073 -14.500 1.969 15.073 -14.500 1.969 H45 VA0 92 VA0 H46 H46 H 0 1 N N N 9.578 -18.073 -0.039 9.578 -18.073 -0.039 H46 VA0 93 VA0 H47 H47 H 0 1 N N N 11.735 -18.551 -1.683 11.735 -18.551 -1.683 H47 VA0 94 VA0 H2 H2 H 0 1 N N N 16.011 -16.854 -1.078 16.011 -16.854 -1.078 H2 VA0 95 # 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 VA0 C31 C20 SING N N 1 VA0 C19 C18 DOUB N Z 2 VA0 C19 C20 SING N N 3 VA0 C18 C17 SING N N 4 VA0 C20 C21 SING N N 5 VA0 O11 C15 DOUB N N 6 VA0 C17 C16 DOUB N Z 7 VA0 C33 C24 SING N N 8 VA0 C21 C22 SING N N 9 VA0 C21 O10 SING N N 10 VA0 O12 C4 DOUB N N 11 VA0 C15 C16 SING N N 12 VA0 C15 N1 SING N N 13 VA0 C22 C32 SING N N 14 VA0 C22 C23 SING N N 15 VA0 C16 C30 SING N N 16 VA0 C3 C4 SING N N 17 VA0 C3 C2 DOUB N N 18 VA0 O4 C11 DOUB N N 19 VA0 C4 C10 SING N N 20 VA0 C24 C23 SING N N 21 VA0 C24 C25 SING N N 22 VA0 N1 C2 SING N N 23 VA0 C23 O9 SING N N 24 VA0 C2 C1 SING N N 25 VA0 C11 C5 SING N N 26 VA0 C11 C12 SING N N 27 VA0 C26 C25 SING N N 28 VA0 C26 C34 SING N N 29 VA0 C26 C27 SING N N 30 VA0 C25 O7 SING N N 31 VA0 O7 C35 SING N N 32 VA0 C10 C5 DOUB Y N 33 VA0 C10 C9 SING Y N 34 VA0 C28 C27 SING N N 35 VA0 C28 C29 DOUB N E 36 VA0 C5 C6 SING Y N 37 VA0 C13 C12 SING N N 38 VA0 C27 O6 SING N N 39 VA0 O5 C12 SING N N 40 VA0 O5 C29 SING N N 41 VA0 C36 C35 SING N N 42 VA0 C12 O3 SING N N 43 VA0 C1 C9 SING N N 44 VA0 C1 O1 DOUB N N 45 VA0 C35 O8 DOUB N N 46 VA0 C9 C8 DOUB Y N 47 VA0 C6 O3 SING N N 48 VA0 C6 C7 DOUB Y N 49 VA0 O6 C37 SING N N 50 VA0 C8 C7 SING Y N 51 VA0 C8 O2 SING N N 52 VA0 C7 C14 SING N N 53 VA0 C3 H1 SING N N 54 VA0 C13 H3 SING N N 55 VA0 C13 H4 SING N N 56 VA0 C13 H5 SING N N 57 VA0 C14 H6 SING N N 58 VA0 C14 H7 SING N N 59 VA0 C14 H8 SING N N 60 VA0 C17 H9 SING N N 61 VA0 C18 H10 SING N N 62 VA0 C19 H12 SING N N 63 VA0 C20 H14 SING N N 64 VA0 C21 H15 SING N N 65 VA0 C22 H16 SING N N 66 VA0 C23 H17 SING N N 67 VA0 C24 H18 SING N N 68 VA0 C25 H19 SING N N 69 VA0 C26 H20 SING N N 70 VA0 C27 H21 SING N N 71 VA0 C28 H22 SING N N 72 VA0 C29 H23 SING N N 73 VA0 C30 H24 SING N N 74 VA0 C30 H25 SING N N 75 VA0 C30 H26 SING N N 76 VA0 C31 H27 SING N N 77 VA0 C31 H28 SING N N 78 VA0 C31 H29 SING N N 79 VA0 C32 H30 SING N N 80 VA0 C32 H31 SING N N 81 VA0 C32 H32 SING N N 82 VA0 C33 H33 SING N N 83 VA0 C33 H34 SING N N 84 VA0 C33 H35 SING N N 85 VA0 C34 H36 SING N N 86 VA0 C34 H37 SING N N 87 VA0 C34 H38 SING N N 88 VA0 C36 H39 SING N N 89 VA0 C36 H40 SING N N 90 VA0 C36 H41 SING N N 91 VA0 C37 H42 SING N N 92 VA0 C37 H43 SING N N 93 VA0 C37 H44 SING N N 94 VA0 O2 H45 SING N N 95 VA0 O9 H46 SING N N 96 VA0 O10 H47 SING N N 97 VA0 N1 H2 SING N N 98 # 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 VA0 SMILES ACDLabs 12.01 "CC(=O)OC1C(C)C(OC)C=COC2(C)Oc3c(C)c(O)c4C(=O)C(=CC(=O)c4c3C2=O)NC(=O)C(C)=CC=CC(C)C(O)C(C)C(O)C1C" VA0 InChI InChI 1.06 "InChI=1S/C37H45NO12/c1-16-11-10-12-17(2)36(46)38-23-15-24(40)26-27(32(23)44)31(43)21(6)34-28(26)35(45)37(8,50-34)48-14-13-25(47-9)18(3)33(49-22(7)39)20(5)30(42)19(4)29(16)41/h10-16,18-20,25,29-30,33,41-43H,1-9H3,(H,38,46)/b11-10?,14-13+,17-12-/t16-,18+,19+,20+,25-,29-,30+,33+,37-/m0/s1" VA0 InChIKey InChI 1.06 BTVYFIMKUHNOBZ-YVIRQOHVSA-N VA0 SMILES_CANONICAL CACTVS 3.385 "CO[C@H]1\C=C\O[C@@]2(C)Oc3c(C)c(O)c4C(=O)C(=CC(=O)c4c3C2=O)NC(=O)\C(=C/C=C\[C@H](C)[C@H](O)[C@@H](C)[C@@H](O)[C@@H](C)[C@H](OC(C)=O)[C@@H]1C)C" VA0 SMILES CACTVS 3.385 "CO[CH]1C=CO[C]2(C)Oc3c(C)c(O)c4C(=O)C(=CC(=O)c4c3C2=O)NC(=O)C(=CC=C[CH](C)[CH](O)[CH](C)[CH](O)[CH](C)[CH](OC(C)=O)[CH]1C)C" VA0 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(c2c3c4c1O[C@@](C4=O)(O/C=C/[C@@H]([C@H]([C@H]([C@@H]([C@@H]([C@@H]([C@H]([C@H](/C=C\C=C(/C(=O)NC(=CC3=O)C2=O)\C)C)O)C)O)C)OC(=O)C)C)OC)C)O" VA0 SMILES "OpenEye OEToolkits" 2.0.7 "Cc1c(c2c3c4c1OC(C4=O)(OC=CC(C(C(C(C(C(C(C(C=CC=C(C(=O)NC(=CC3=O)C2=O)C)C)O)C)O)C)OC(=O)C)C)OC)C)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 VA0 "SYSTEMATIC NAME" ACDLabs 12.01 "(2S,12Z,14Z,16S,17S,18R,19R,20R,21S,22R,23S,24E)-5,17,19-trihydroxy-23-methoxy-2,4,12,16,18,20,22-heptamethyl-1,6,9,11-tetraoxo-1,2,6,9-tetrahydro-2,7-(epoxypentadeca[1,11,13]trienoimino)naphtho[2,1-b]furan-21-yl acetate" VA0 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(4~{Z},6~{Z},8~{S},9~{S},10~{R},11~{R},12~{R},13~{S},14~{R},15~{S},16~{E},19~{S})-15-methoxy-4,8,10,12,14,19,28-heptamethyl-9,11,27-tris(oxidanyl)-3,20,23,25-tetrakis(oxidanylidene)-18,30-dioxa-2-azatetracyclo[17.6.5.0^{21,29}.0^{22,26}]triaconta-1(24),4,6,16,21,26,28-heptaen-13-yl] ethanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VA0 "Create component" 2022-08-18 RCSB VA0 "Initial release" 2023-03-15 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id VA0 _pdbx_chem_comp_synonyms.name "(2S,12Z,14Z,16S,17S,18R,19R,20R,21S,22R,23S,24E)-5,17,19-trihydroxy-23-methoxy-2,4,12,16,18,20,22-heptamethyl-1,6,9,11-tetraoxo-1,2,6,9-tetrahydro-2,7-(epoxypentadeca[1,11,13]trienoimino)naphtho[2,1-b]furan-21-yl acetate" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? #