data_I8H
#
_chem_comp.id I8H
_chem_comp.name "(1~{R},2~{S},5~{S})-3-[(2~{S})-2-(~{tert}-butylcarbamoylamino)-3,3-dimethyl-butanoyl]-6,6-dimethyl-~{N}-[(2~{S},3~{R})-4-(methylamino)-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]-3-azabicyclo[3.1.0]hexane-2-carboxamide"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C28 H48 N6 O6"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-02-23
_chem_comp.pdbx_modified_date 2024-09-27
_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 564.717
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code I8H
_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 7Z0P
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
_chem_comp.pdbx_pcm Y
#
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_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_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
I8H N1 N1 N 0 1 N N N N N N -15.697 1.180 -0.776 -0.396 -0.572 0.493 N1 I8H 1
I8H N3 N2 N 0 1 N N N N N N -14.046 -1.021 1.386 3.210 0.187 0.246 N3 I8H 2
I8H C4 C1 C 0 1 N N S N N N -15.791 -0.057 -0.003 0.947 -0.365 1.081 C4 I8H 3
I8H C5 C2 C 0 1 N N N N N N -15.278 2.283 -0.133 -1.344 0.355 0.249 C5 I8H 4
I8H C6 C3 C 0 1 N N N N N N -14.419 -0.705 0.142 1.997 -0.349 0.000 C6 I8H 5
I8H C7 C4 C 0 1 N N S N N N -15.097 3.575 -0.942 -2.626 -0.041 -0.438 C7 I8H 6
I8H C8 C5 C 0 1 N N N N N N -13.636 3.943 -1.185 -2.435 0.028 -1.954 C8 I8H 7
I8H C10 C6 C 0 1 N N N N N N -12.923 4.185 0.143 -2.025 1.447 -2.352 C10 I8H 8
I8H C13 C7 C 0 1 N N N N N N -16.810 5.361 -0.872 -4.982 0.472 -0.089 C13 I8H 9
I8H C15 C8 C 0 1 N N N N N N -18.589 7.528 -1.602 -7.555 -0.334 1.137 C15 I8H 10
I8H C17 C9 C 0 1 N N N N N N -19.715 5.970 -0.182 -8.274 2.016 0.689 C17 I8H 11
I8H C20 C10 C 0 1 N N N N N N -12.154 -0.934 2.931 5.215 1.343 -0.542 C20 I8H 12
I8H C21 C11 C 0 1 N N S N N N -11.739 0.492 2.605 4.488 2.684 -0.664 C21 I8H 13
I8H C22 C12 C 0 1 N N N N N N -11.354 1.290 3.832 3.465 2.834 0.440 C22 I8H 14
I8H C24 C13 C 0 1 N N N N N N -10.526 0.676 1.698 5.470 3.856 -0.433 C24 I8H 15
I8H C26 C14 C 0 1 N N N N N N -18.096 -0.444 -1.326 -0.039 -2.067 2.836 C26 I8H 16
I8H C28 C15 C 0 1 N N N N N N -18.972 -1.682 -1.291 0.256 -2.939 4.058 C28 I8H 17
I8H C1 C16 C 0 1 N N R N N N -16.732 -0.923 -0.832 1.155 -1.576 2.015 C1 I8H 18
I8H C2 C17 C 0 1 N N S N N N -16.859 -0.287 -2.196 0.226 -2.674 1.457 C2 I8H 19
I8H C3 C18 C 0 1 N N N N N N -16.088 1.019 -2.184 -0.460 -2.028 0.228 C3 I8H 20
I8H N2 N3 N 0 1 N N N N N N -15.773 4.700 -0.305 -3.697 0.875 -0.038 N2 I8H 21
I8H C9 C19 C 0 1 N N S N N N -12.755 -1.643 1.721 4.230 0.203 -0.805 C9 I8H 22
I8H O1 O1 O 0 1 N N N N N N -13.708 -0.888 -0.842 1.752 -0.817 -1.091 O1 I8H 23
I8H O2 O2 O 0 1 N N N N N N -15.041 2.227 1.076 -1.165 1.507 0.582 O2 I8H 24
I8H C11 C20 C 0 1 N N N N N N -12.888 2.830 -1.931 -1.341 -0.956 -2.375 C11 I8H 25
I8H C12 C21 C 0 1 N N N N N N -13.574 5.224 -2.025 -3.746 -0.339 -2.651 C12 I8H 26
I8H N4 N4 N 0 1 N N N N N N -17.220 6.481 -0.223 -5.967 1.316 0.278 N4 I8H 27
I8H C14 C22 C 0 1 N N N N N N -18.599 6.993 -0.172 -7.364 0.878 0.223 C14 I8H 28
I8H O3 O3 O 0 1 N N N N N N -17.336 4.959 -1.925 -5.253 -0.651 -0.466 O3 I8H 29
I8H C16 C23 C 0 1 N N N N N N -18.931 8.238 0.618 -7.723 0.495 -1.214 C16 I8H 30
I8H C18 C24 C 0 1 N N R N N N -12.934 -3.167 1.926 4.982 -1.130 -0.806 C18 I8H 31
I8H C19 C25 C 0 1 N N N N N N -11.627 -3.933 2.121 4.011 -2.254 -1.065 C19 I8H 32
I8H N5 N5 N 0 1 N N N N N N -11.326 -4.907 1.281 3.375 -2.335 -2.250 N5 I8H 33
I8H N6 N6 N 0 1 N N N N N N -10.385 2.147 3.503 3.935 3.651 1.398 N6 I8H 34
I8H C23 C26 C 0 1 N N N N N N -9.926 2.019 2.126 5.285 4.128 1.076 C23 I8H 35
I8H O4 O4 O 0 1 N N N N N N -10.880 -3.606 3.036 3.802 -3.085 -0.206 O4 I8H 36
I8H O5 O5 O 0 1 N N N N N N -13.653 -3.697 0.818 5.608 -1.325 0.464 O5 I8H 37
I8H O6 O6 O 0 1 N N N N N N -11.874 1.180 4.944 2.378 2.295 0.458 O6 I8H 38
I8H C25 C27 C 0 1 N N N N N N -10.949 -4.665 -0.098 2.432 -3.428 -2.502 C25 I8H 39
I8H C27 C28 C 0 1 N N N N N N -18.612 0.640 -0.401 -1.236 -1.124 2.973 C27 I8H 40
I8H H1 H1 H 0 1 N N N N N N -14.681 -0.823 2.133 3.406 0.562 1.119 H1 I8H 41
I8H H2 H2 H 0 1 N N N N N N -16.227 0.131 0.989 0.974 0.565 1.650 H2 I8H 42
I8H H3 H3 H 0 1 N N N N N N -15.561 3.410 -1.926 -2.892 -1.059 -0.151 H3 I8H 43
I8H H4 H4 H 0 1 N N N N N N -12.962 3.270 0.753 -1.091 1.708 -1.856 H4 I8H 44
I8H H5 H5 H 0 1 N N N N N N -11.873 4.453 -0.048 -1.889 1.496 -3.433 H5 I8H 45
I8H H6 H6 H 0 1 N N N N N N -13.419 5.006 0.681 -2.804 2.148 -2.052 H6 I8H 46
I8H H7 H7 H 0 1 N N N N N N -19.562 7.988 -1.829 -8.595 -0.660 1.096 H7 I8H 47
I8H H8 H8 H 0 1 N N N N N N -17.794 8.281 -1.706 -6.907 -1.145 0.805 H8 I8H 48
I8H H9 H9 H 0 1 N N N N N N -18.403 6.700 -2.302 -7.300 -0.061 2.161 H9 I8H 49
I8H H10 H10 H 0 1 N N N N N N -19.808 5.518 0.816 -8.019 2.289 1.713 H10 I8H 50
I8H H11 H11 H 0 1 N N N N N N -20.661 6.462 -0.450 -8.138 2.880 0.038 H11 I8H 51
I8H H12 H12 H 0 1 N N N N N N -19.487 5.186 -0.920 -9.314 1.691 0.649 H12 I8H 52
I8H H13 H13 H 0 1 N N N N N N -12.902 -0.911 3.737 6.024 1.301 -1.272 H13 I8H 53
I8H H14 H14 H 0 1 N N N N N N -11.269 -1.494 3.268 5.627 1.244 0.462 H14 I8H 54
I8H H15 H15 H 0 1 N N N N N N -12.595 0.993 2.129 4.011 2.770 -1.640 H15 I8H 55
I8H H16 H16 H 0 1 N N N N N N -10.832 0.706 0.642 6.495 3.555 -0.652 H16 I8H 56
I8H H17 H17 H 0 1 N N N N N N -9.802 -0.138 1.847 5.185 4.726 -1.024 H17 I8H 57
I8H H18 H18 H 0 1 N N N N N N -19.796 -1.529 -0.579 0.879 -2.383 4.759 H18 I8H 58
I8H H19 H19 H 0 1 N N N N N N -19.384 -1.868 -2.294 -0.681 -3.213 4.544 H19 I8H 59
I8H H20 H20 H 0 1 N N N N N N -18.371 -2.548 -0.976 0.780 -3.841 3.743 H20 I8H 60
I8H H21 H21 H 0 1 N N N N N N -16.569 -2.010 -0.797 2.167 -1.775 2.367 H21 I8H 61
I8H H22 H22 H 0 1 N N N N N N -16.766 -0.934 -3.081 0.523 -3.719 1.378 H22 I8H 62
I8H H23 H23 H 0 1 N N N N N N -15.202 0.957 -2.833 -1.497 -2.354 0.157 H23 I8H 63
I8H H24 H24 H 0 1 N N N N N N -16.725 1.854 -2.512 0.082 -2.279 -0.684 H24 I8H 64
I8H H25 H25 H 0 1 N N N N N N -15.455 4.998 0.595 -3.481 1.772 0.262 H25 I8H 65
I8H H26 H26 H 0 1 N N N N N N -12.069 -1.501 0.873 3.752 0.351 -1.773 H26 I8H 66
I8H H27 H27 H 0 1 N N N N N N -12.924 1.903 -1.340 -1.651 -1.971 -2.129 H27 I8H 67
I8H H28 H28 H 0 1 N N N N N N -13.364 2.660 -2.908 -1.176 -0.877 -3.450 H28 I8H 68
I8H H29 H29 H 0 1 N N N N N N -11.840 3.129 -2.080 -0.417 -0.720 -1.848 H29 I8H 69
I8H H30 H30 H 0 1 N N N N N N -14.107 6.032 -1.502 -4.526 0.361 -2.351 H30 I8H 70
I8H H31 H31 H 0 1 N N N N N N -12.523 5.514 -2.174 -3.610 -0.290 -3.731 H31 I8H 71
I8H H32 H32 H 0 1 N N N N N N -14.047 5.045 -3.002 -4.038 -1.350 -2.367 H32 I8H 72
I8H H33 H33 H 0 1 N N N N N N -16.522 7.005 0.264 -5.752 2.212 0.579 H33 I8H 73
I8H H34 H34 H 0 1 N N N N N N -18.972 7.993 1.690 -8.762 0.169 -1.255 H34 I8H 74
I8H H35 H35 H 0 1 N N N N N N -18.156 8.999 0.445 -7.587 1.358 -1.865 H35 I8H 75
I8H H36 H36 H 0 1 N N N N N N -19.907 8.628 0.294 -7.074 -0.317 -1.546 H36 I8H 76
I8H H37 H37 H 0 1 N N N N N N -13.536 -3.304 2.837 5.741 -1.118 -1.588 H37 I8H 77
I8H H38 H38 H 0 1 N N N N N N -11.360 -5.851 1.610 3.542 -1.671 -2.937 H38 I8H 78
I8H H39 H39 H 0 1 N N N N N N -10.008 2.816 4.143 3.445 3.895 2.199 H39 I8H 79
I8H H40 H40 H 0 1 N N N N N N -8.827 1.998 2.074 6.028 3.576 1.653 H40 I8H 80
I8H H41 H41 H 0 1 N N N N N N -10.307 2.841 1.502 5.366 5.196 1.280 H41 I8H 81
I8H H42 H42 H 0 1 N N N N N N -13.769 -4.633 0.933 4.991 -1.346 1.208 H42 I8H 82
I8H H43 H43 H 0 1 N N N N N N -10.746 -5.624 -0.597 2.020 -3.328 -3.507 H43 I8H 83
I8H H44 H44 H 0 1 N N N N N N -11.770 -4.148 -0.617 2.950 -4.382 -2.415 H44 I8H 84
I8H H45 H45 H 0 1 N N N N N N -10.045 -4.039 -0.126 1.624 -3.385 -1.772 H45 I8H 85
I8H H46 H46 H 0 1 N N N N N N -19.515 0.283 0.116 -0.916 -0.198 3.450 H46 I8H 86
I8H H47 H47 H 0 1 N N N N N N -17.839 0.887 0.341 -1.639 -0.903 1.984 H47 I8H 87
I8H H48 H48 H 0 1 N N N N N N -18.856 1.537 -0.988 -2.006 -1.599 3.581 H48 I8H 88
#
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
I8H C2 C3 SING N N 1
I8H C2 C26 SING N N 2
I8H C2 C1 SING N N 3
I8H C3 N1 SING N N 4
I8H C12 C8 SING N N 5
I8H C11 C8 SING N N 6
I8H O3 C13 DOUB N N 7
I8H C15 C14 SING N N 8
I8H C26 C28 SING N N 9
I8H C26 C1 SING N N 10
I8H C26 C27 SING N N 11
I8H C8 C7 SING N N 12
I8H C8 C10 SING N N 13
I8H C7 N2 SING N N 14
I8H C7 C5 SING N N 15
I8H C13 N2 SING N N 16
I8H C13 N4 SING N N 17
I8H O1 C6 DOUB N N 18
I8H C1 C4 SING N N 19
I8H N1 C5 SING N N 20
I8H N1 C4 SING N N 21
I8H N4 C14 SING N N 22
I8H C17 C14 SING N N 23
I8H C14 C16 SING N N 24
I8H C5 O2 DOUB N N 25
I8H C25 N5 SING N N 26
I8H C4 C6 SING N N 27
I8H C6 N3 SING N N 28
I8H O5 C18 SING N N 29
I8H N5 C19 SING N N 30
I8H N3 C9 SING N N 31
I8H C24 C23 SING N N 32
I8H C24 C21 SING N N 33
I8H C9 C18 SING N N 34
I8H C9 C20 SING N N 35
I8H C18 C19 SING N N 36
I8H C19 O4 DOUB N N 37
I8H C23 N6 SING N N 38
I8H C21 C20 SING N N 39
I8H C21 C22 SING N N 40
I8H N6 C22 SING N N 41
I8H C22 O6 DOUB N N 42
I8H N3 H1 SING N N 43
I8H C4 H2 SING N N 44
I8H C7 H3 SING N N 45
I8H C10 H4 SING N N 46
I8H C10 H5 SING N N 47
I8H C10 H6 SING N N 48
I8H C15 H7 SING N N 49
I8H C15 H8 SING N N 50
I8H C15 H9 SING N N 51
I8H C17 H10 SING N N 52
I8H C17 H11 SING N N 53
I8H C17 H12 SING N N 54
I8H C20 H13 SING N N 55
I8H C20 H14 SING N N 56
I8H C21 H15 SING N N 57
I8H C24 H16 SING N N 58
I8H C24 H17 SING N N 59
I8H C28 H18 SING N N 60
I8H C28 H19 SING N N 61
I8H C28 H20 SING N N 62
I8H C1 H21 SING N N 63
I8H C2 H22 SING N N 64
I8H C3 H23 SING N N 65
I8H C3 H24 SING N N 66
I8H N2 H25 SING N N 67
I8H C9 H26 SING N N 68
I8H C11 H27 SING N N 69
I8H C11 H28 SING N N 70
I8H C11 H29 SING N N 71
I8H C12 H30 SING N N 72
I8H C12 H31 SING N N 73
I8H C12 H32 SING N N 74
I8H N4 H33 SING N N 75
I8H C16 H34 SING N N 76
I8H C16 H35 SING N N 77
I8H C16 H36 SING N N 78
I8H C18 H37 SING N N 79
I8H N5 H38 SING N N 80
I8H N6 H39 SING N N 81
I8H C23 H40 SING N N 82
I8H C23 H41 SING N N 83
I8H O5 H42 SING N N 84
I8H C25 H43 SING N N 85
I8H C25 H44 SING N N 86
I8H C25 H45 SING N N 87
I8H C27 H46 SING N N 88
I8H C27 H47 SING N N 89
I8H C27 H48 SING N N 90
#
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
I8H InChI InChI 1.06 "InChI=1S/C28H48N6O6/c1-26(2,3)20(32-25(40)33-27(4,5)6)24(39)34-13-15-17(28(15,7)8)18(34)22(37)31-16(19(35)23(38)29-9)12-14-10-11-30-21(14)36/h14-20,35H,10-13H2,1-9H3,(H,29,38)(H,30,36)(H,31,37)(H2,32,33,40)/t14-,15-,16-,17-,18-,19+,20+/m0/s1"
I8H InChIKey InChI 1.06 VFDRLCYAHUFIDR-ZYRLFZHTSA-N
I8H SMILES_CANONICAL CACTVS 3.385 "CNC(=O)[C@H](O)[C@H](C[C@@H]1CCNC1=O)NC(=O)[C@@H]2[C@@H]3[C@H](CN2C(=O)[C@@H](NC(=O)NC(C)(C)C)C(C)(C)C)C3(C)C"
I8H SMILES CACTVS 3.385 "CNC(=O)[CH](O)[CH](C[CH]1CCNC1=O)NC(=O)[CH]2[CH]3[CH](CN2C(=O)[CH](NC(=O)NC(C)(C)C)C(C)(C)C)C3(C)C"
I8H SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC1([C@@H]2[C@H]1[C@H](N(C2)C(=O)[C@H](C(C)(C)C)NC(=O)NC(C)(C)C)C(=O)N[C@@H](C[C@@H]3CCNC3=O)[C@H](C(=O)NC)O)C"
I8H SMILES "OpenEye OEToolkits" 2.0.7 "CC1(C2C1C(N(C2)C(=O)C(C(C)(C)C)NC(=O)NC(C)(C)C)C(=O)NC(CC3CCNC3=O)C(C(=O)NC)O)C"
#
_pdbx_chem_comp_identifier.comp_id I8H
_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 "(1~{R},2~{S},5~{S})-3-[(2~{S})-2-(~{tert}-butylcarbamoylamino)-3,3-dimethyl-butanoyl]-6,6-dimethyl-~{N}-[(2~{S},3~{R})-4-(methylamino)-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]-3-azabicyclo[3.1.0]hexane-2-carboxamide"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
I8H "Create component" 2022-02-23 PDBE
I8H "Initial release" 2022-04-27 RCSB
I8H "Modify descriptor" 2022-08-22 RCSB
I8H "Modify PCM" 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id I8H
_pdbx_chem_comp_pcm.modified_residue_id CYS
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category "Covalent chemical modification"
_pdbx_chem_comp_pcm.position "Amino-acid side chain"
_pdbx_chem_comp_pcm.polypeptide_position "Any position"
_pdbx_chem_comp_pcm.comp_id_linking_atom C18
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ?
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ?
#