data_1YI
#
_chem_comp.id 1YI
_chem_comp.name "N-[2-(dimethylamino)ethyl]-2-methyl-2-[4-[4-[[2-methyl-5-[(2S,3R,4R,5S,6R)-6-methylsulfanyl-3,4,5-tris(oxidanyl)oxan-2-yl]phenyl]methyl]phenyl]butanoylamino]propanamide"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C32 H47 N3 O6 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms LX2761
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-01-26
_chem_comp.pdbx_modified_date 2022-11-11
_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 601.797
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 1YI
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 7WMV
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
#
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
1YI C13 C1 C 0 1 N N R 106.585 114.218 112.698 -7.168 2.713 0.735 C13 1YI 1
1YI C15 C2 C 0 1 N N R 106.050 112.633 114.547 -8.979 1.005 0.558 C15 1YI 2
1YI C17 C3 C 0 1 Y N N 104.024 111.140 110.766 -4.801 -1.333 0.249 C17 1YI 3
1YI C20 C4 C 0 1 Y N N 103.626 108.779 110.527 -4.208 -2.465 -1.775 C20 1YI 4
1YI C21 C5 C 0 1 Y N N 104.626 108.507 111.437 -5.236 -1.821 -2.437 C21 1YI 5
1YI C22 C6 C 0 1 N N N 102.234 110.466 109.205 -2.880 -2.936 0.294 C22 1YI 6
1YI C24 C7 C 0 1 Y N N 100.911 110.073 109.846 -1.591 -2.180 0.100 C24 1YI 7
1YI C26 C8 C 0 1 N N N 92.545 108.407 114.139 7.950 -0.891 1.489 C26 1YI 8
1YI C28 C9 C 0 1 Y N N 100.141 109.053 109.319 -0.773 -2.471 -0.975 C28 1YI 9
1YI C11 C10 C 0 1 N N R 105.694 113.343 111.806 -6.235 1.725 0.029 C11 1YI 10
1YI C12 C11 C 0 1 N N S 105.840 111.929 112.354 -6.700 0.296 0.324 C12 1YI 11
1YI C14 C12 C 0 1 N N S 105.990 114.087 114.099 -8.606 2.462 0.272 C14 1YI 12
1YI C16 C13 C 0 1 Y N N 105.029 110.853 111.663 -5.823 -0.681 -0.415 C16 1YI 13
1YI C18 C14 C 0 1 Y N N 105.319 109.548 112.006 -6.041 -0.925 -1.759 C18 1YI 14
1YI C19 C15 C 0 1 Y N N 103.333 110.096 110.188 -3.993 -2.225 -0.431 C19 1YI 15
1YI C23 C16 C 0 1 N N N 104.801 110.649 116.200 -11.029 -0.958 0.635 C23 1YI 16
1YI C25 C17 C 0 1 N N N 102.892 107.590 109.921 -3.331 -3.443 -2.515 C25 1YI 17
1YI C27 C18 C 0 1 Y N N 100.517 110.745 110.979 -1.229 -1.190 0.995 C27 1YI 18
1YI C29 C19 C 0 1 Y N N 98.556 109.383 111.080 0.774 -0.792 -0.254 C29 1YI 19
1YI C30 C20 C 0 1 N N N 97.245 109.006 111.756 2.063 -0.035 -0.448 C30 1YI 20
1YI C31 C21 C 0 1 N N N 97.108 107.503 111.935 3.194 -0.757 0.289 C31 1YI 21
1YI C32 C22 C 0 1 Y N N 99.328 110.410 111.602 -0.047 -0.496 0.818 C32 1YI 22
1YI C33 C23 C 0 1 Y N N 98.954 108.713 109.937 0.410 -1.777 -1.153 C33 1YI 23
1YI C34 C24 C 0 1 N N N 96.107 107.127 113.039 4.502 0.012 0.092 C34 1YI 24
1YI C35 C25 C 0 1 N N N 94.780 107.913 113.042 5.616 -0.699 0.817 C35 1YI 25
1YI C36 C26 C 0 1 N N N 91.696 107.883 115.298 9.239 -0.135 1.295 C36 1YI 26
1YI C37 C27 C 0 1 N N N 92.889 109.868 114.425 8.101 -2.307 0.929 C37 1YI 27
1YI C38 C28 C 0 1 N N N 91.711 108.277 112.861 7.621 -0.965 2.981 C38 1YI 28
1YI N8 N1 N 0 1 N N N 93.804 107.673 114.094 6.867 -0.200 0.784 N8 1YI 29
1YI N9 N2 N 0 1 N N N 90.968 106.633 115.149 9.483 0.492 0.127 N9 1YI 30
1YI O2 O1 O 0 1 N N N 105.306 111.885 113.648 -8.055 0.139 -0.103 O2 1YI 31
1YI O3 O2 O 0 1 N N N 106.050 113.444 110.457 -4.901 1.901 0.507 O3 1YI 32
1YI O4 O3 O 0 1 N N N 106.560 115.552 112.284 -6.787 4.051 0.407 O4 1YI 33
1YI O5 O4 O 0 1 N N N 106.634 114.878 115.050 -9.494 3.330 0.979 O5 1YI 34
1YI O6 O5 O 0 1 N N N 94.512 108.703 112.208 5.386 -1.720 1.431 O6 1YI 35
1YI O7 O6 O 0 1 N N N 91.625 108.487 116.316 10.056 -0.090 2.190 O7 1YI 36
1YI S1 S1 S 0 1 N N N 105.267 112.404 116.160 -10.656 0.679 -0.052 S1 1YI 37
1YI H1 H1 H 0 1 N N N 107.609 113.817 112.696 -7.102 2.569 1.814 H1 1YI 38
1YI H2 H2 H 0 1 N N N 107.092 112.292 114.634 -8.942 0.825 1.633 H2 1YI 39
1YI H3 H3 H 0 1 N N N 103.782 112.163 110.520 -4.632 -1.142 1.298 H3 1YI 40
1YI H4 H4 H 0 1 N N N 104.862 107.486 111.700 -5.404 -2.009 -3.487 H4 1YI 41
1YI H5 H5 H 0 1 N N N 102.373 109.920 108.260 -2.772 -3.945 -0.106 H5 1YI 42
1YI H6 H6 H 0 1 N N N 102.252 111.548 109.009 -3.114 -2.989 1.357 H6 1YI 43
1YI H7 H7 H 0 1 N N N 100.465 108.527 108.433 -1.057 -3.241 -1.677 H7 1YI 44
1YI H8 H8 H 0 1 N N N 104.650 113.662 111.945 -6.264 1.902 -1.046 H8 1YI 45
1YI H9 H9 H 0 1 N N N 106.903 111.645 112.353 -6.633 0.106 1.396 H9 1YI 46
1YI H10 H10 H 0 1 N N N 104.930 114.376 114.040 -8.683 2.654 -0.798 H10 1YI 47
1YI H11 H11 H 0 1 N N N 106.097 109.344 112.727 -6.839 -0.415 -2.278 H11 1YI 48
1YI H12 H12 H 0 1 N N N 104.312 110.421 117.159 -12.030 -1.262 0.328 H12 1YI 49
1YI H13 H13 H 0 1 N N N 104.106 110.435 115.374 -10.301 -1.681 0.267 H13 1YI 50
1YI H14 H14 H 0 1 N N N 105.702 110.028 116.091 -10.980 -0.915 1.723 H14 1YI 51
1YI H15 H15 H 0 1 N N N 103.410 107.266 109.006 -2.480 -2.914 -2.944 H15 1YI 52
1YI H16 H16 H 0 1 N N N 102.874 106.762 110.645 -2.974 -4.206 -1.824 H16 1YI 53
1YI H17 H17 H 0 1 N N N 101.861 107.883 109.674 -3.905 -3.914 -3.312 H17 1YI 54
1YI H18 H18 H 0 1 N N N 101.135 111.534 111.382 -1.870 -0.959 1.833 H18 1YI 55
1YI H19 H19 H 0 1 N N N 97.204 109.487 112.745 2.297 0.017 -1.511 H19 1YI 56
1YI H20 H20 H 0 1 N N N 96.410 109.368 111.138 1.955 0.973 -0.049 H20 1YI 57
1YI H21 H21 H 0 1 N N N 96.766 107.065 110.986 2.959 -0.809 1.352 H21 1YI 58
1YI H22 H22 H 0 1 N N N 98.093 107.088 112.196 3.301 -1.765 -0.110 H22 1YI 59
1YI H23 H23 H 0 1 N N N 99.005 110.942 112.485 0.235 0.277 1.517 H23 1YI 60
1YI H24 H24 H 0 1 N N N 98.338 107.926 109.529 1.049 -2.006 -1.993 H24 1YI 61
1YI H25 H25 H 0 1 N N N 95.866 106.060 112.926 4.736 0.064 -0.971 H25 1YI 62
1YI H26 H26 H 0 1 N N N 96.598 107.291 114.009 4.394 1.020 0.491 H26 1YI 63
1YI H27 H27 H 0 1 N N N 93.487 109.931 115.346 8.907 -2.821 1.454 H27 1YI 64
1YI H28 H28 H 0 1 N N N 93.467 110.280 113.584 7.169 -2.855 1.069 H28 1YI 65
1YI H29 H29 H 0 1 N N N 91.961 110.445 114.550 8.335 -2.255 -0.134 H29 1YI 66
1YI H30 H30 H 0 1 N N N 90.781 108.854 112.969 8.427 -1.479 3.506 H30 1YI 67
1YI H31 H31 H 0 1 N N N 92.286 108.665 112.007 7.514 0.043 3.380 H31 1YI 68
1YI H32 H32 H 0 1 N N N 91.467 107.218 112.689 6.689 -1.513 3.121 H32 1YI 69
1YI H33 H33 H 0 1 N N N 94.000 106.992 114.799 7.051 0.616 0.293 H33 1YI 70
1YI H34 H34 H 0 1 N N N 90.969 106.178 116.040 8.830 0.456 -0.589 H34 1YI 71
1YI H36 H36 H 0 1 N N N 105.941 114.342 110.167 -4.542 2.786 0.353 H36 1YI 72
1YI H37 H37 H 0 1 N N N 107.118 116.071 112.851 -7.340 4.729 0.817 H37 1YI 73
1YI H38 H38 H 0 1 N N N 106.222 114.755 115.897 -10.424 3.225 0.735 H38 1YI 74
1YI C39 C39 C 0 1 N N N ? ? ? 10.736 1.228 -0.061 C39 1YI 75
1YI C40 C40 C 0 1 N N N ? ? ? 10.762 1.840 -1.462 C40 1YI 76
1YI N41 N41 N 0 1 N N N ? ? ? 12.019 2.578 -1.651 N41 1YI 77
1YI C42 C42 C 0 1 N N N ? ? ? 13.170 1.666 -1.647 C42 1YI 78
1YI C43 C43 C 0 1 N N N ? ? ? 11.982 3.374 -2.886 C43 1YI 79
1YI H35 H35 H 0 1 N N N ? ? ? 10.807 2.021 0.684 H35 1YI 80
1YI H39 H39 H 0 1 N N N ? ? ? 11.579 0.546 0.054 H39 1YI 81
1YI H40 H40 H 0 1 N N N ? ? ? 10.691 1.047 -2.207 H40 1YI 82
1YI H41 H41 H 0 1 N N N ? ? ? 9.920 2.523 -1.577 H41 1YI 83
1YI H42 H42 H 0 1 N N N ? ? ? 13.064 0.943 -2.456 H42 1YI 84
1YI H43 H43 H 0 1 N N N ? ? ? 14.087 2.239 -1.788 H43 1YI 85
1YI H44 H44 H 0 1 N N N ? ? ? 13.214 1.140 -0.693 H44 1YI 86
1YI H45 H45 H 0 1 N N N ? ? ? 11.161 4.089 -2.833 H45 1YI 87
1YI H46 H46 H 0 1 N N N ? ? ? 12.924 3.910 -3.001 H46 1YI 88
1YI H47 H47 H 0 1 N N N ? ? ? 11.833 2.713 -3.740 H47 1YI 89
#
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
1YI C22 C24 SING N N 1
1YI C22 C19 SING N N 2
1YI C28 C24 DOUB Y N 3
1YI C28 C33 SING Y N 4
1YI C24 C27 SING Y N 5
1YI C25 C20 SING N N 6
1YI C33 C29 DOUB Y N 7
1YI C19 C20 DOUB Y N 8
1YI C19 C17 SING Y N 9
1YI O3 C11 SING N N 10
1YI C20 C21 SING Y N 11
1YI C17 C16 DOUB Y N 12
1YI C27 C32 DOUB Y N 13
1YI C29 C32 SING Y N 14
1YI C29 C30 SING N N 15
1YI C21 C18 DOUB Y N 16
1YI C16 C18 SING Y N 17
1YI C16 C12 SING N N 18
1YI C30 C31 SING N N 19
1YI C11 C12 SING N N 20
1YI C11 C13 SING N N 21
1YI C31 C34 SING N N 22
1YI O6 C35 DOUB N N 23
1YI O4 C13 SING N N 24
1YI C12 O2 SING N N 25
1YI C13 C14 SING N N 26
1YI C38 C26 SING N N 27
1YI C34 C35 SING N N 28
1YI C35 N8 SING N N 29
1YI O2 C15 SING N N 30
1YI N8 C26 SING N N 31
1YI C14 C15 SING N N 32
1YI C14 O5 SING N N 33
1YI C26 C37 SING N N 34
1YI C26 C36 SING N N 35
1YI C15 S1 SING N N 36
1YI N9 C36 SING N N 37
1YI C36 O7 DOUB N N 38
1YI S1 C23 SING N N 39
1YI C13 H1 SING N N 40
1YI C15 H2 SING N N 41
1YI C17 H3 SING N N 42
1YI C21 H4 SING N N 43
1YI C22 H5 SING N N 44
1YI C22 H6 SING N N 45
1YI C28 H7 SING N N 46
1YI C11 H8 SING N N 47
1YI C12 H9 SING N N 48
1YI C14 H10 SING N N 49
1YI C18 H11 SING N N 50
1YI C23 H12 SING N N 51
1YI C23 H13 SING N N 52
1YI C23 H14 SING N N 53
1YI C25 H15 SING N N 54
1YI C25 H16 SING N N 55
1YI C25 H17 SING N N 56
1YI C27 H18 SING N N 57
1YI C30 H19 SING N N 58
1YI C30 H20 SING N N 59
1YI C31 H21 SING N N 60
1YI C31 H22 SING N N 61
1YI C32 H23 SING N N 62
1YI C33 H24 SING N N 63
1YI C34 H25 SING N N 64
1YI C34 H26 SING N N 65
1YI C37 H27 SING N N 66
1YI C37 H28 SING N N 67
1YI C37 H29 SING N N 68
1YI C38 H30 SING N N 69
1YI C38 H31 SING N N 70
1YI C38 H32 SING N N 71
1YI N8 H33 SING N N 72
1YI N9 H34 SING N N 73
1YI O3 H36 SING N N 74
1YI O4 H37 SING N N 75
1YI O5 H38 SING N N 76
1YI N9 C39 SING N N 77
1YI C39 C40 SING N N 78
1YI C40 N41 SING N N 79
1YI N41 C42 SING N N 80
1YI N41 C43 SING N N 81
1YI C39 H35 SING N N 82
1YI C39 H39 SING N N 83
1YI C40 H40 SING N N 84
1YI C40 H41 SING N N 85
1YI C42 H42 SING N N 86
1YI C42 H43 SING N N 87
1YI C42 H44 SING N N 88
1YI C43 H45 SING N N 89
1YI C43 H46 SING N N 90
1YI C43 H47 SING N N 91
#
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
1YI InChI InChI 1.03 "InChI=1S/C32H47N3O6S/c1-20-10-15-23(29-27(38)26(37)28(39)30(41-29)42-6)19-24(20)18-22-13-11-21(12-14-22)8-7-9-25(36)34-32(2,3)31(40)33-16-17-35(4)5/h10-15,19,26-30,37-39H,7-9,16-18H2,1-6H3,(H,33,40)(H,34,36)/t26-,27-,28+,29+,30-/m1/s1"
1YI InChIKey InChI 1.03 BNPZTRDIESRGTC-IXYVTWBDSA-N
1YI SMILES_CANONICAL CACTVS 3.385 "CS[C@H]1O[C@H]([C@H](O)[C@@H](O)[C@@H]1O)c2ccc(C)c(Cc3ccc(CCCC(=O)NC(C)(C)C(=O)NCCN(C)C)cc3)c2"
1YI SMILES CACTVS 3.385 "CS[CH]1O[CH]([CH](O)[CH](O)[CH]1O)c2ccc(C)c(Cc3ccc(CCCC(=O)NC(C)(C)C(=O)NCCN(C)C)cc3)c2"
1YI SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1ccc(cc1Cc2ccc(cc2)CCCC(=O)NC(C)(C)C(=O)NCCN(C)C)[C@H]3[C@@H]([C@H]([C@@H]([C@H](O3)SC)O)O)O"
1YI SMILES "OpenEye OEToolkits" 2.0.7 "Cc1ccc(cc1Cc2ccc(cc2)CCCC(=O)NC(C)(C)C(=O)NCCN(C)C)C3C(C(C(C(O3)SC)O)O)O"
#
_pdbx_chem_comp_identifier.comp_id 1YI
_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 "~{N}-[2-(dimethylamino)ethyl]-2-methyl-2-[4-[4-[[2-methyl-5-[(2~{S},3~{R},4~{R},5~{S},6~{R})-6-methylsulfanyl-3,4,5-tris(oxidanyl)oxan-2-yl]phenyl]methyl]phenyl]butanoylamino]propanamide"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
1YI "Create component" 2022-01-26 PDBJ
1YI "Initial release" 2022-11-16 RCSB
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id 1YI
_pdbx_chem_comp_synonyms.name LX2761
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#