data_XN0 # _chem_comp.id XN0 _chem_comp.name "3',4'-demethoxy-nogalose-nogalamycinone" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C29 H32 O12" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "methyl (1R,2S,4S)-4-[(2R,3R,4R,5S,6S)-3-methoxy-4,6-dimethyl-4,5-bis(oxidanyl)oxan-2-yl]oxy-2-methyl-2,5,7-tris(oxidanyl)-6,11-bis(oxidanylidene)-3,4-dihydro-1H-tetracene-1-carboxylate; methyl 4-(4,5-dihydroxy-3-methoxy-4,6-dimethyloxan-2-yl)oxy-2,5,7-trihydroxy-2-methyl-6,11-dioxo-3,4-dihydro-1H-tetracene-1-carboxylate; methyl (1R,2S,4S)-4-[(2R,3R,4R,5S,6S)-4,5-dihydroxy-3-methoxy-4,6-dimethyloxan-2-yl]oxy-2,5,7-trihydroxy-2-methyl-6,11-dioxo-3,4-dihydro-1H-tetracene-1-carboxylate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-11-06 _chem_comp.pdbx_modified_date 2024-08-02 _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 572.557 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XN0 _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 8R2B _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.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 _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag XN0 CBP C1 C 0 1 N N N 24.079 51.192 8.577 -1.917 -2.828 1.643 CBP XN0 1 N N N XN0 OBO O1 O 0 1 N N N 22.842 51.862 8.497 -2.844 -2.757 0.558 OBO XN0 2 N N N XN0 CAD C2 C 0 1 N N R 22.946 52.971 9.353 -3.762 -1.665 0.648 CAD XN0 3 N N N XN0 CAC C3 C 0 1 N N R 21.740 52.947 10.181 -5.082 -2.049 -0.028 CAC XN0 4 N N N XN0 CAK C4 C 0 1 N N N 21.891 53.912 11.327 -5.716 -3.224 0.719 CAK XN0 5 N N N XN0 OAJ O2 O 0 1 N N N 21.606 51.645 10.776 -4.833 -2.424 -1.385 OAJ XN0 6 N N N XN0 CAB C5 C 0 1 N N S 20.537 53.165 9.399 -6.029 -0.846 0.006 CAB XN0 7 N N N XN0 OAG O3 O 0 1 N N N 19.390 53.352 10.274 -6.329 -0.512 1.362 OAG XN0 8 N N N XN0 CAA C6 C 0 1 N N S 20.670 54.400 8.580 -5.352 0.346 -0.677 CAA XN0 9 N N N XN0 CAL C7 C 0 1 N N N 19.380 54.536 7.720 -5.083 0.008 -2.145 CAL XN0 10 N N N XN0 OAF O4 O 0 1 N N N 21.765 54.260 7.796 -4.116 0.631 -0.019 OAF XN0 11 N N N XN0 CAE C8 C 0 1 N N R 23.002 54.135 8.426 -3.172 -0.442 -0.060 CAE XN0 12 N N N XN0 OAH O5 O 0 1 N N N 23.380 55.260 9.175 -1.969 -0.043 0.600 OAH XN0 13 N N N XN0 CBD C9 C 0 1 N N S 23.783 56.416 8.384 -1.282 1.032 -0.042 CBD XN0 14 N N N XN0 CBE C10 C 0 1 N N N 22.566 57.299 8.311 -1.689 2.351 0.611 CBE XN0 15 N N N XN0 CBF C11 C 0 1 N N S 22.940 58.802 8.359 -0.787 3.461 0.059 CBF XN0 16 N N N XN0 CBM C12 C 0 1 N N N 21.683 59.679 8.271 -1.316 4.826 0.504 CBM XN0 17 N N N XN0 OBL O6 O 0 1 N N N 23.787 59.133 7.195 -0.762 3.396 -1.369 OBL XN0 18 N N N XN0 CAY C13 C 0 1 Y N N 24.952 56.972 8.978 0.204 0.816 0.079 CAY XN0 19 N N N XN0 CAX C14 C 0 1 Y N N 26.134 56.256 8.966 0.684 -0.483 -0.121 CAX XN0 20 N N N XN0 OBN O7 O 0 1 N N N 26.145 55.075 8.334 -0.182 -1.486 -0.407 OBN XN0 21 N N N XN0 CAT C15 C 0 1 Y N N 27.319 56.715 9.531 2.050 -0.752 -0.027 CAT XN0 22 N N N XN0 CAS C16 C 0 1 N N N 28.477 55.963 9.433 2.560 -2.119 -0.239 CAS XN0 23 N N N XN0 OBC O8 O 0 1 N N N 28.474 54.853 8.850 1.789 -3.023 -0.496 OBC XN0 24 N N N XN0 CAP C17 C 0 1 Y N N 29.620 56.423 10.001 4.006 -2.388 -0.139 CAP XN0 25 N N N XN0 CAO C18 C 0 1 Y N N 30.783 55.672 9.934 4.498 -3.681 -0.340 CAO XN0 26 N N N XN0 OAW O9 O 0 1 N N N 30.701 54.538 9.239 3.646 -4.696 -0.629 OAW XN0 27 N N N XN0 CAN C19 C 0 1 Y N N 31.966 56.089 10.483 5.865 -3.922 -0.243 CAN XN0 28 N N N XN0 CAM C20 C 0 1 Y N N 31.974 57.304 11.158 6.736 -2.893 0.050 CAM XN0 29 N N N XN0 CAR C21 C 0 1 Y N N 30.851 58.098 11.240 6.263 -1.606 0.251 CAR XN0 30 N N N XN0 CAQ C22 C 0 1 Y N N 29.652 57.639 10.671 4.900 -1.343 0.159 CAQ XN0 31 N N N XN0 CAV C23 C 0 1 N N N 28.495 58.406 10.775 4.390 0.028 0.372 CAV XN0 32 N N N XN0 OBB O10 O 0 1 N N N 28.510 59.503 11.378 5.160 0.931 0.629 OBB XN0 33 N N N XN0 CAU C24 C 0 1 Y N N 27.321 57.930 10.183 2.940 0.296 0.271 CAU XN0 34 N N N XN0 CBA C25 C 0 1 Y N N 26.147 58.679 10.218 2.445 1.577 0.468 CBA XN0 35 N N N XN0 CAZ C26 C 0 1 Y N N 24.961 58.255 9.628 1.079 1.835 0.373 CAZ XN0 36 N N N XN0 CBG C27 C 0 1 N N R 23.769 59.047 9.690 0.623 3.252 0.608 CBG XN0 37 N N N XN0 CBH C28 C 0 1 N N N 24.012 60.441 9.790 1.570 4.199 -0.082 CBH XN0 38 N N N XN0 OBJ O11 O 0 1 N N N 23.528 61.122 10.719 2.033 3.913 -1.160 OBJ XN0 39 N N N XN0 OBI O12 O 0 1 N N N 24.746 60.970 8.772 1.900 5.362 0.502 OBI XN0 40 N N N XN0 CBK C29 C 0 1 N N N 25.122 62.330 8.950 2.817 6.226 -0.219 CBK XN0 41 N N N XN0 H1 H1 H 0 1 N N N 24.060 50.307 7.924 -2.462 -2.942 2.580 H1 XN0 42 N N N XN0 H2 H2 H 0 1 N N N 24.884 51.869 8.255 -1.255 -3.682 1.501 H2 XN0 43 N N N XN0 H3 H3 H 0 1 N N N 24.259 50.877 9.615 -1.326 -1.912 1.676 H3 XN0 44 N N N XN0 H4 H4 H 0 1 N N N 23.852 52.927 9.975 -3.944 -1.428 1.696 H4 XN0 45 N N N XN0 H5 H5 H 0 1 N N N 20.983 53.891 11.947 -5.909 -2.936 1.753 H5 XN0 46 N N N XN0 H6 H6 H 0 1 N N N 22.759 53.622 11.938 -6.655 -3.496 0.237 H6 XN0 47 N N N XN0 H7 H7 H 0 1 N N N 22.043 54.928 10.933 -5.037 -4.076 0.700 H7 XN0 48 N N N XN0 H8 H8 H 0 1 N N N 20.824 51.622 11.316 -5.627 -2.680 -1.874 H8 XN0 49 N N N XN0 H9 H9 H 0 1 N N N 20.363 52.305 8.735 -6.951 -1.093 -0.521 H9 XN0 50 N N N XN0 H10 H10 H 0 1 N N N 19.274 52.579 10.814 -6.925 0.243 1.459 H10 XN0 51 N N N XN0 H11 H11 H 0 1 N N N 20.750 55.276 9.240 -6.004 1.217 -0.618 H11 XN0 52 N N N XN0 H12 H12 H 0 1 N N N 18.508 54.648 8.381 -5.997 -0.370 -2.604 H12 XN0 53 N N N XN0 H13 H13 H 0 1 N N N 19.464 55.420 7.071 -4.756 0.905 -2.670 H13 XN0 54 N N N XN0 H14 H14 H 0 1 N N N 19.256 53.636 7.100 -4.305 -0.752 -2.205 H14 XN0 55 N N N XN0 H15 H15 H 0 1 N N N 23.774 53.930 7.670 -2.952 -0.693 -1.097 H15 XN0 56 N N N XN0 H16 H16 H 0 1 N N N 24.022 56.079 7.364 -1.557 1.054 -1.097 H16 XN0 57 N N N XN0 H17 H17 H 0 1 N N N 21.908 57.069 9.162 -2.730 2.572 0.374 H17 XN0 58 N N N XN0 H18 H18 H 0 1 N N N 22.034 57.095 7.370 -1.565 2.280 1.691 H18 XN0 59 N N N XN0 H19 H19 H 0 1 N N N 21.023 59.462 9.124 -1.324 4.874 1.593 H19 XN0 60 N N N XN0 H20 H20 H 0 1 N N N 21.974 60.740 8.293 -0.673 5.612 0.110 H20 XN0 61 N N N XN0 H21 H21 H 0 1 N N N 21.151 59.464 7.332 -2.330 4.963 0.127 H21 XN0 62 N N N XN0 H22 H22 H 0 1 N N N 24.577 58.606 7.218 -1.629 3.504 -1.782 H22 XN0 63 N N N XN0 H23 H23 H 0 1 N N N 27.018 54.703 8.372 -0.400 -1.562 -1.347 H23 XN0 64 N N N XN0 H24 H24 H 0 1 N N N 29.809 54.416 8.936 3.490 -4.822 -1.575 H24 XN0 65 N N N XN0 H25 H25 H 0 1 N N N 32.863 55.494 10.395 6.247 -4.921 -0.398 H25 XN0 66 N N N XN0 H26 H26 H 0 1 N N N 32.886 57.635 11.632 7.795 -3.092 0.123 H26 XN0 67 N N N XN0 H27 H27 H 0 1 N N N 30.892 59.058 11.734 6.952 -0.807 0.480 H27 XN0 68 N N N XN0 H28 H28 H 0 1 N N N 26.158 59.632 10.726 3.126 2.384 0.696 H28 XN0 69 N N N XN0 H29 H29 H 0 1 N N N 23.148 58.715 10.535 0.625 3.458 1.678 H29 XN0 70 N N N XN0 H30 H30 H 0 1 N N N 25.708 62.666 8.082 3.759 5.701 -0.380 H30 XN0 71 N N N XN0 H31 H31 H 0 1 N N N 24.219 62.951 9.045 2.382 6.494 -1.182 H31 XN0 72 N N N XN0 H32 H32 H 0 1 N N N 25.730 62.426 9.862 2.999 7.129 0.362 H32 XN0 73 N N N # 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 XN0 OBL CBF SING N N 1 XN0 CAL CAA SING N N 2 XN0 OAF CAE SING N N 3 XN0 OAF CAA SING N N 4 XN0 CBM CBF SING N N 5 XN0 CBE CBF SING N N 6 XN0 CBE CBD SING N N 7 XN0 OBN CAX SING N N 8 XN0 CBF CBG SING N N 9 XN0 CBD CAY SING N N 10 XN0 CBD OAH SING N N 11 XN0 CAE OAH SING N N 12 XN0 CAE CAD SING N N 13 XN0 OBO CBP SING N N 14 XN0 OBO CAD SING N N 15 XN0 CAA CAB SING N N 16 XN0 OBI CBK SING N N 17 XN0 OBI CBH SING N N 18 XN0 OBC CAS DOUB N N 19 XN0 CAX CAY DOUB Y N 20 XN0 CAX CAT SING Y N 21 XN0 CAY CAZ SING Y N 22 XN0 OAW CAO SING N N 23 XN0 CAD CAC SING N N 24 XN0 CAB CAC SING N N 25 XN0 CAB OAG SING N N 26 XN0 CAS CAT SING N N 27 XN0 CAS CAP SING N N 28 XN0 CAT CAU DOUB Y N 29 XN0 CAZ CBG SING N N 30 XN0 CAZ CBA DOUB Y N 31 XN0 CBG CBH SING N N 32 XN0 CBH OBJ DOUB N N 33 XN0 CAO CAP SING Y N 34 XN0 CAO CAN DOUB Y N 35 XN0 CAP CAQ DOUB Y N 36 XN0 CAC OAJ SING N N 37 XN0 CAC CAK SING N N 38 XN0 CAU CBA SING Y N 39 XN0 CAU CAV SING N N 40 XN0 CAN CAM SING Y N 41 XN0 CAQ CAV SING N N 42 XN0 CAQ CAR SING Y N 43 XN0 CAV OBB DOUB N N 44 XN0 CAM CAR DOUB Y N 45 XN0 CBP H1 SING N N 46 XN0 CBP H2 SING N N 47 XN0 CBP H3 SING N N 48 XN0 CAD H4 SING N N 49 XN0 CAK H5 SING N N 50 XN0 CAK H6 SING N N 51 XN0 CAK H7 SING N N 52 XN0 OAJ H8 SING N N 53 XN0 CAB H9 SING N N 54 XN0 OAG H10 SING N N 55 XN0 CAA H11 SING N N 56 XN0 CAL H12 SING N N 57 XN0 CAL H13 SING N N 58 XN0 CAL H14 SING N N 59 XN0 CAE H15 SING N N 60 XN0 CBD H16 SING N N 61 XN0 CBE H17 SING N N 62 XN0 CBE H18 SING N N 63 XN0 CBM H19 SING N N 64 XN0 CBM H20 SING N N 65 XN0 CBM H21 SING N N 66 XN0 OBL H22 SING N N 67 XN0 OBN H23 SING N N 68 XN0 OAW H24 SING N N 69 XN0 CAN H25 SING N N 70 XN0 CAM H26 SING N N 71 XN0 CAR H27 SING N N 72 XN0 CBA H28 SING N N 73 XN0 CBG H29 SING N N 74 XN0 CBK H30 SING N N 75 XN0 CBK H31 SING N N 76 XN0 CBK H32 SING N N 77 # 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 XN0 InChI InChI 1.06 "InChI=1S/C29H32O12/c1-11-24(34)29(3,37)25(38-4)27(40-11)41-16-10-28(2,36)20(26(35)39-5)13-9-14-19(23(33)18(13)16)22(32)17-12(21(14)31)7-6-8-15(17)30/h6-9,11,16,20,24-25,27,30,33-34,36-37H,10H2,1-5H3/t11-,16-,20-,24-,25-,27-,28-,29+/m0/s1" XN0 InChIKey InChI 1.06 XDICDWFRDRDUMQ-GUXZDVRLSA-N XN0 SMILES_CANONICAL CACTVS 3.385 "CO[C@H]1[C@@H](O[C@@H](C)[C@H](O)[C@@]1(C)O)O[C@H]2C[C@](C)(O)[C@H](C(=O)OC)c3cc4C(=O)c5cccc(O)c5C(=O)c4c(O)c23" XN0 SMILES CACTVS 3.385 "CO[CH]1[CH](O[CH](C)[CH](O)[C]1(C)O)O[CH]2C[C](C)(O)[CH](C(=O)OC)c3cc4C(=O)c5cccc(O)c5C(=O)c4c(O)c23" XN0 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]1[C@@H]([C@@]([C@H]([C@@H](O1)O[C@H]2C[C@]([C@@H](c3c2c(c4c(c3)C(=O)c5cccc(c5C4=O)O)O)C(=O)OC)(C)O)OC)(C)O)O" XN0 SMILES "OpenEye OEToolkits" 2.0.7 "CC1C(C(C(C(O1)OC2CC(C(c3c2c(c4c(c3)C(=O)c5cccc(c5C4=O)O)O)C(=O)OC)(C)O)OC)(C)O)O" # _pdbx_chem_comp_identifier.comp_id XN0 _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 "methyl (1~{R},2~{S},4~{S})-4-[(2~{R},3~{R},4~{R},5~{S},6~{S})-3-methoxy-4,6-dimethyl-4,5-bis(oxidanyl)oxan-2-yl]oxy-2-methyl-2,5,7-tris(oxidanyl)-6,11-bis(oxidanylidene)-3,4-dihydro-1~{H}-tetracene-1-carboxylate" # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 XN0 "methyl (1R,2S,4S)-4-[(2R,3R,4R,5S,6S)-3-methoxy-4,6-dimethyl-4,5-bis(oxidanyl)oxan-2-yl]oxy-2-methyl-2,5,7-tris(oxidanyl)-6,11-bis(oxidanylidene)-3,4-dihydro-1H-tetracene-1-carboxylate" PDB ? 2 XN0 "methyl 4-(4,5-dihydroxy-3-methoxy-4,6-dimethyloxan-2-yl)oxy-2,5,7-trihydroxy-2-methyl-6,11-dioxo-3,4-dihydro-1H-tetracene-1-carboxylate" PUBCHEM ? 3 XN0 "methyl (1R,2S,4S)-4-[(2R,3R,4R,5S,6S)-4,5-dihydroxy-3-methoxy-4,6-dimethyloxan-2-yl]oxy-2,5,7-trihydroxy-2-methyl-6,11-dioxo-3,4-dihydro-1H-tetracene-1-carboxylate" PUBCHEM ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XN0 "Create component" 2023-11-06 PDBE XN0 "Modify name" 2023-11-06 PDBE XN0 "Initial release" 2024-08-07 RCSB #