data_Y7K
# 
_chem_comp.id                                    Y7K 
_chem_comp.name                                  "(2R,4R,4aS,5aR,6S,7S,8R,9S,9aR,10aS)-2-methyl-6,8-bis(methylamino)-4-({[2-(oxan-4-yl)ethyl]amino}methyl)octahydro-2H-pyrano[2,3-b][1,4]benzodioxine-4,4a,7,9(10aH)-tetrol" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C22 H41 N3 O8" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-11-26 
_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                        475.576 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y7K 
_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        8UVS 
_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.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
Y7K CAB C1  C 0 1 N N N N N N 111.637 50.496 11.066 -4.830 3.416  0.980  CAB Y7K 1  
Y7K CAC C2  C 0 1 N N S N N N 114.046 50.225 10.952 -4.172 1.197  0.267  CAC Y7K 2  
Y7K CAE C3  C 0 1 N N S N N N 115.128 50.512 9.924  -5.475 0.593  -0.264 CAE Y7K 3  
Y7K CAF C4  C 0 1 N N R N N N 115.774 49.406 12.537 -3.029 -0.996 -0.048 CAF Y7K 4  
Y7K CAI C5  C 0 1 N N R N N N 116.274 49.551 10.131 -5.517 -0.903 0.051  CAI Y7K 5  
Y7K CAK C6  C 0 1 N N S N N N 116.831 49.707 11.516 -4.319 -1.604 -0.596 CAK Y7K 6  
Y7K CAL C7  C 0 1 N N S N N N 114.031 49.980 14.649 -0.604 0.402  -0.485 CAL Y7K 7  
Y7K NAM N1  N 0 1 N N N N N N 117.343 49.784 9.157  -6.762 -1.478 -0.477 NAM Y7K 8  
Y7K CAN C8  C 0 1 N N S N N N 115.351 49.241 14.840 -0.647 -1.092 -0.157 CAN Y7K 9  
Y7K CAD C9  C 0 1 N N R N N N 114.596 50.317 12.364 -2.987 0.495  -0.396 CAD Y7K 10 
Y7K CAQ C10 C 0 1 N N R N N N 112.969 49.362 15.560 0.662  1.023  0.107  CAQ Y7K 11 
Y7K CAR C11 C 0 1 N N N N N N 116.824 49.544 7.805  -7.860 -1.333 0.489  CAR Y7K 12 
Y7K CAU C12 C 0 1 N N N N N N 112.913 47.878 15.289 0.700  0.751  1.614  CAU Y7K 13 
Y7K CAV C13 C 0 1 N N R N N N 114.297 47.287 15.510 0.627  -0.760 1.850  CAV Y7K 14 
Y7K CAW C14 C 0 1 N N N N N N 114.291 45.786 15.225 0.615  -1.042 3.354  CAW Y7K 15 
Y7K CAX C15 C 0 1 N N N N N N 113.334 49.585 17.013 1.893  0.401  -0.555 CAX Y7K 16 
Y7K CAZ C16 C 0 1 N N N N N N 111.723 50.359 18.594 4.313  0.333  -0.515 CAZ Y7K 17 
Y7K CBA C17 C 0 1 N N N N N N 112.587 50.658 19.820 5.555  0.884  0.189  CBA Y7K 18 
Y7K CBB C18 C 0 1 N N N N N N 111.679 50.789 21.046 6.810  0.284  -0.448 CBB Y7K 19 
Y7K CBC C19 C 0 1 N N N N N N 111.417 49.400 21.631 8.056  0.927  0.170  CBC Y7K 20 
Y7K CBD C20 C 0 1 N N N N N N 111.059 49.550 23.101 9.306  0.265  -0.416 CBD Y7K 21 
Y7K CBF C21 C 0 1 N N N N N N 113.130 50.839 23.061 8.142  -1.804 -0.758 CBF Y7K 22 
Y7K CBG C22 C 0 1 N N N N N N 112.312 51.690 22.106 6.846  -1.225 -0.187 CBG Y7K 23 
Y7K NAA N2  N 0 1 N N N N N N 112.923 51.159 10.780 -4.131 2.632  -0.047 NAA Y7K 24 
Y7K NAY N3  N 0 1 N N N N N N 112.217 49.177 17.875 3.108  0.909  0.097  NAY Y7K 25 
Y7K OAG O1  O 0 1 N N N N N N 113.598 49.860 13.286 -1.755 1.048  0.070  OAG Y7K 26 
Y7K OAH O2  O 0 1 N N N N N N 115.593 51.846 10.066 -5.544 0.783  -1.679 OAH Y7K 27 
Y7K OAJ O3  O 0 1 N N N N N N 116.310 49.627 13.846 -1.889 -1.640 -0.619 OAJ Y7K 28 
Y7K OAO O4  O 0 1 N N N N N N 117.893 48.758 11.673 -4.358 -2.999 -0.290 OAO Y7K 29 
Y7K OAP O5  O 0 1 N N N N N N 114.218 51.369 14.965 -0.600 0.577  -1.903 OAP Y7K 30 
Y7K OAS O6  O 0 1 N N N N N N 115.202 47.875 14.604 -0.548 -1.275 1.257  OAS Y7K 31 
Y7K OAT O7  O 0 1 N N N N N N 111.673 49.941 15.332 0.656  2.433  -0.124 OAT Y7K 32 
Y7K OBE O8  O 0 1 N N N N N N 112.238 49.987 23.840 9.261  -1.141 -0.165 OBE Y7K 33 
Y7K H1  H1  H 0 1 N N N N N N 110.815 51.215 10.930 -5.872 3.099  1.033  H1  Y7K 34 
Y7K H2  H2  H 0 1 N N N N N N 111.500 49.649 10.378 -4.353 3.256  1.947  H2  Y7K 35 
Y7K H3  H3  H 0 1 N N N N N N 111.636 50.130 12.103 -4.785 4.474  0.723  H3  Y7K 36 
Y7K H4  H4  H 0 1 N N N N N N 113.682 49.199 10.791 -4.120 1.059  1.347  H4  Y7K 37 
Y7K H5  H5  H 0 1 N N N N N N 114.711 50.360 8.918  -6.323 1.086  0.210  H5  Y7K 38 
Y7K H6  H6  H 0 1 N N N N N N 115.448 48.361 12.428 -3.006 -1.112 1.036  H6  Y7K 39 
Y7K H7  H7  H 0 1 N N N N N N 115.897 48.524 10.016 -5.482 -1.048 1.131  H7  Y7K 40 
Y7K H8  H8  H 0 1 N N N N N N 117.201 50.733 11.655 -4.357 -1.467 -1.677 H8  Y7K 41 
Y7K H9  H9  H 0 1 N N N N N N 118.103 49.160 9.339  -6.633 -2.445 -0.735 H9  Y7K 42 
Y7K H11 H11 H 0 1 N N N N N N 115.737 49.434 15.852 0.182  -1.599 -0.651 H11 Y7K 43 
Y7K H12 H12 H 0 1 N N N N N N 114.888 51.355 12.582 -3.052 0.617  -1.477 H12 Y7K 44 
Y7K H13 H13 H 0 1 N N N N N N 117.623 49.718 7.069  -8.747 -1.841 0.110  H13 Y7K 45 
Y7K H14 H14 H 0 1 N N N N N N 116.473 48.505 7.726  -7.567 -1.774 1.441  H14 Y7K 46 
Y7K H15 H15 H 0 1 N N N N N N 115.987 50.230 7.606  -8.081 -0.275 0.632  H15 Y7K 47 
Y7K H16 H16 H 0 1 N N N N N N 112.598 47.704 14.250 1.624  1.143  2.039  H16 Y7K 48 
Y7K H17 H17 H 0 1 N N N N N N 112.195 47.404 15.974 -0.155 1.236  2.087  H17 Y7K 49 
Y7K H18 H18 H 0 1 N N N N N N 114.609 47.460 16.551 1.495  -1.240 1.398  H18 Y7K 50 
Y7K H19 H19 H 0 1 N N N N N N 113.594 45.284 15.913 -0.253 -0.562 3.806  H19 Y7K 51 
Y7K H20 H20 H 0 1 N N N N N N 113.971 45.611 14.187 0.563  -2.118 3.522  H20 Y7K 52 
Y7K H21 H21 H 0 1 N N N N N N 115.304 45.381 15.369 1.525  -0.647 3.806  H21 Y7K 53 
Y7K H22 H22 H 0 1 N N N N N N 114.224 48.988 17.262 1.852  -0.683 -0.453 H22 Y7K 54 
Y7K H23 H23 H 0 1 N N N N N N 113.550 50.651 17.176 1.910  0.667  -1.612 H23 Y7K 55 
Y7K H24 H24 H 0 1 N N N N N N 111.746 51.226 17.918 4.347  0.597  -1.571 H24 Y7K 56 
Y7K H25 H25 H 0 1 N N N N N N 110.688 50.175 18.920 4.289  -0.752 -0.412 H25 Y7K 57 
Y7K H26 H26 H 0 1 N N N N N N 113.303 49.837 19.976 5.579  1.969  0.086  H26 Y7K 58 
Y7K H27 H27 H 0 1 N N N N N N 113.136 51.599 19.665 5.522  0.619  1.246  H27 Y7K 59 
Y7K H28 H28 H 0 1 N N N N N N 110.721 51.229 20.732 6.799  0.469  -1.522 H28 Y7K 60 
Y7K H29 H29 H 0 1 N N N N N N 110.584 48.923 21.094 8.067  1.993  -0.059 H29 Y7K 61 
Y7K H30 H30 H 0 1 N N N N N N 112.320 48.780 21.531 8.041  0.785  1.250  H30 Y7K 62 
Y7K H31 H31 H 0 1 N N N N N N 110.259 50.297 23.210 9.341  0.442  -1.491 H31 Y7K 63 
Y7K H32 H32 H 0 1 N N N N N N 110.715 48.583 23.496 10.194 0.689  0.052  H32 Y7K 64 
Y7K H33 H33 H 0 1 N N N N N N 113.828 50.211 22.487 8.193  -2.870 -0.538 H33 Y7K 65 
Y7K H34 H34 H 0 1 N N N N N N 113.698 51.492 23.740 8.163  -1.655 -1.838 H34 Y7K 66 
Y7K H35 H35 H 0 1 N N N N N N 112.966 52.428 21.619 6.806  -1.410 0.887  H35 Y7K 67 
Y7K H36 H36 H 0 1 N N N N N N 111.521 52.213 22.664 5.991  -1.699 -0.670 H36 Y7K 68 
Y7K H37 H37 H 0 1 N N N N N N 113.040 51.930 11.406 -3.181 2.950  -0.160 H37 Y7K 69 
Y7K H39 H39 H 0 1 N N N N N N 111.483 48.792 17.315 3.137  1.918  0.072  H39 Y7K 70 
Y7K H41 H41 H 0 1 N N N N N N 114.871 52.449 9.935  -6.348 0.428  -2.084 H41 Y7K 71 
Y7K H42 H42 H 0 1 N N N N N N 118.263 48.837 12.544 -5.107 -3.467 -0.684 H42 Y7K 72 
Y7K H43 H43 H 0 1 N N N N N N 114.505 51.453 15.867 -1.376 0.209  -2.347 H43 Y7K 73 
Y7K H44 H44 H 0 1 N N N N N N 111.038 49.536 15.912 1.431  2.892  0.226  H44 Y7K 74 
# 
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 
Y7K CAR NAM SING N N 1  
Y7K NAM CAI SING N N 2  
Y7K CAE OAH SING N N 3  
Y7K CAE CAI SING N N 4  
Y7K CAE CAC SING N N 5  
Y7K CAI CAK SING N N 6  
Y7K NAA CAC SING N N 7  
Y7K NAA CAB SING N N 8  
Y7K CAC CAD SING N N 9  
Y7K CAK OAO SING N N 10 
Y7K CAK CAF SING N N 11 
Y7K CAD CAF SING N N 12 
Y7K CAD OAG SING N N 13 
Y7K CAF OAJ SING N N 14 
Y7K OAG CAL SING N N 15 
Y7K OAJ CAN SING N N 16 
Y7K OAS CAN SING N N 17 
Y7K OAS CAV SING N N 18 
Y7K CAL CAN SING N N 19 
Y7K CAL OAP SING N N 20 
Y7K CAL CAQ SING N N 21 
Y7K CAW CAV SING N N 22 
Y7K CAU CAV SING N N 23 
Y7K CAU CAQ SING N N 24 
Y7K OAT CAQ SING N N 25 
Y7K CAQ CAX SING N N 26 
Y7K CAX NAY SING N N 27 
Y7K NAY CAZ SING N N 28 
Y7K CAZ CBA SING N N 29 
Y7K CBA CBB SING N N 30 
Y7K CBB CBC SING N N 31 
Y7K CBB CBG SING N N 32 
Y7K CBC CBD SING N N 33 
Y7K CBG CBF SING N N 34 
Y7K CBF OBE SING N N 35 
Y7K CBD OBE SING N N 36 
Y7K CAB H1  SING N N 37 
Y7K CAB H2  SING N N 38 
Y7K CAB H3  SING N N 39 
Y7K CAC H4  SING N N 40 
Y7K CAE H5  SING N N 41 
Y7K CAF H6  SING N N 42 
Y7K CAI H7  SING N N 43 
Y7K CAK H8  SING N N 44 
Y7K NAM H9  SING N N 45 
Y7K CAN H11 SING N N 46 
Y7K CAD H12 SING N N 47 
Y7K CAR H13 SING N N 48 
Y7K CAR H14 SING N N 49 
Y7K CAR H15 SING N N 50 
Y7K CAU H16 SING N N 51 
Y7K CAU H17 SING N N 52 
Y7K CAV H18 SING N N 53 
Y7K CAW H19 SING N N 54 
Y7K CAW H20 SING N N 55 
Y7K CAW H21 SING N N 56 
Y7K CAX H22 SING N N 57 
Y7K CAX H23 SING N N 58 
Y7K CAZ H24 SING N N 59 
Y7K CAZ H25 SING N N 60 
Y7K CBA H26 SING N N 61 
Y7K CBA H27 SING N N 62 
Y7K CBB H28 SING N N 63 
Y7K CBC H29 SING N N 64 
Y7K CBC H30 SING N N 65 
Y7K CBD H31 SING N N 66 
Y7K CBD H32 SING N N 67 
Y7K CBF H33 SING N N 68 
Y7K CBF H34 SING N N 69 
Y7K CBG H35 SING N N 70 
Y7K CBG H36 SING N N 71 
Y7K NAA H37 SING N N 72 
Y7K NAY H39 SING N N 73 
Y7K OAH H41 SING N N 74 
Y7K OAO H42 SING N N 75 
Y7K OAP H43 SING N N 76 
Y7K OAT H44 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 
Y7K SMILES           ACDLabs              12.01 "CC1OC2OC3C(OC2(O)C(O)(CNCCC2CCOCC2)C1)C(NC)C(O)C(NC)C3O"                                                                                                                                              
Y7K InChI            InChI                1.06  "InChI=1S/C22H41N3O8/c1-12-10-21(28,11-25-7-4-13-5-8-30-9-6-13)22(29)20(31-12)32-19-17(27)14(23-2)16(26)15(24-3)18(19)33-22/h12-20,23-29H,4-11H2,1-3H3/t12-,14-,15+,16+,17+,18-,19-,20+,21-,22-/m1/s1" 
Y7K InChIKey         InChI                1.06  LKCDGONKFJKONL-WUYRLSBSSA-N                                                                                                                                                                            
Y7K SMILES_CANONICAL CACTVS               3.385 "CN[C@@H]1[C@H](O)[C@H](NC)[C@H]2O[C@]3(O)[C@@H](O[C@H](C)C[C@@]3(O)CNCCC4CCOCC4)O[C@@H]2[C@H]1O"                                                                                                      
Y7K SMILES           CACTVS               3.385 "CN[CH]1[CH](O)[CH](NC)[CH]2O[C]3(O)[CH](O[CH](C)C[C]3(O)CNCCC4CCOCC4)O[CH]2[CH]1O"                                                                                                                    
Y7K SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H]1C[C@]([C@]2([C@@H](O1)O[C@@H]3[C@H]([C@@H]([C@@H]([C@@H]([C@H]3O2)NC)O)NC)O)O)(CNCCC4CCOCC4)O"                                                                                                
Y7K SMILES           "OpenEye OEToolkits" 2.0.7 "CC1CC(C2(C(O1)OC3C(C(C(C(C3O2)NC)O)NC)O)O)(CNCCC4CCOCC4)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 
Y7K "SYSTEMATIC NAME" ACDLabs              12.01 "(2R,4R,4aS,5aR,6S,7S,8R,9S,9aR,10aS)-2-methyl-6,8-bis(methylamino)-4-({[2-(oxan-4-yl)ethyl]amino}methyl)octahydro-2H-pyrano[2,3-b][1,4]benzodioxine-4,4a,7,9(10aH)-tetrol"                              
Y7K "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(1~{R},3~{S},5~{R},7~{R},8~{S},10~{R},11~{S},12~{S},13~{R},14~{S})-5-methyl-11,13-bis(methylamino)-7-[[2-(oxan-4-yl)ethylamino]methyl]-2,4,9-trioxatricyclo[8.4.0.0^{3,8}]tetradecane-7,8,12,14-tetrol" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
Y7K "Create component" 2023-11-26 RCSB 
Y7K "Initial release"  2024-08-07 RCSB 
# 
